-- dump date 20140619_125228 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1104322000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1104322000002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322000003 Walker A motif; other site 1104322000004 ATP binding site [chemical binding]; other site 1104322000005 Walker B motif; other site 1104322000006 arginine finger; other site 1104322000007 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 1104322000008 DnaA box-binding interface [nucleotide binding]; other site 1104322000009 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 1104322000010 DNA polymerase III beta subunit; Region: POL3Bc; smart00480 1104322000011 putative DNA binding surface [nucleotide binding]; other site 1104322000012 dimer interface [polypeptide binding]; other site 1104322000013 beta-clamp/clamp loader binding surface; other site 1104322000014 beta-clamp/translesion DNA polymerase binding surface; other site 1104322000015 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 1104322000016 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1104322000017 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1104322000018 Part of AAA domain; Region: AAA_19; pfam13245 1104322000019 Family description; Region: UvrD_C_2; pfam13538 1104322000020 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1104322000021 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104322000022 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322000023 non-specific DNA binding site [nucleotide binding]; other site 1104322000024 salt bridge; other site 1104322000025 sequence-specific DNA binding site [nucleotide binding]; other site 1104322000026 GTP-binding protein YchF; Reviewed; Region: PRK09601 1104322000027 YchF GTPase; Region: YchF; cd01900 1104322000028 G1 box; other site 1104322000029 GTP/Mg2+ binding site [chemical binding]; other site 1104322000030 Switch I region; other site 1104322000031 G2 box; other site 1104322000032 Switch II region; other site 1104322000033 G3 box; other site 1104322000034 G4 box; other site 1104322000035 G5 box; other site 1104322000036 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 1104322000037 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322000038 non-specific DNA binding site [nucleotide binding]; other site 1104322000039 salt bridge; other site 1104322000040 sequence-specific DNA binding site [nucleotide binding]; other site 1104322000041 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 1104322000042 putative active site [active] 1104322000043 catalytic residue [active] 1104322000044 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1104322000045 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1104322000046 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1104322000047 ATP binding site [chemical binding]; other site 1104322000048 putative Mg++ binding site [ion binding]; other site 1104322000049 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1104322000050 nucleotide binding region [chemical binding]; other site 1104322000051 ATP-binding site [chemical binding]; other site 1104322000052 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1104322000053 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1104322000054 RNA binding surface [nucleotide binding]; other site 1104322000055 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1104322000056 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1104322000057 RNA binding site [nucleotide binding]; other site 1104322000058 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1104322000059 SH3-like domain; Region: SH3_8; pfam13457 1104322000060 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1104322000061 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1104322000062 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 1104322000063 Ligand Binding Site [chemical binding]; other site 1104322000064 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1104322000065 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322000066 active site 1104322000067 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1104322000068 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322000069 Walker A motif; other site 1104322000070 ATP binding site [chemical binding]; other site 1104322000071 Walker B motif; other site 1104322000072 arginine finger; other site 1104322000073 Peptidase family M41; Region: Peptidase_M41; pfam01434 1104322000074 potential frameshift: common BLAST hit: gi|125622903|ref|YP_001031386.1| PTS system mannitol-specific transporter subunit IIBC 1104322000075 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1104322000076 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1104322000077 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1104322000078 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1104322000079 active site 1104322000080 P-loop; other site 1104322000081 phosphorylation site [posttranslational modification] 1104322000082 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1104322000083 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1104322000084 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 1104322000085 active site 1104322000086 P-loop; other site 1104322000087 phosphorylation site [posttranslational modification] 1104322000088 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1104322000089 active site 1104322000090 phosphorylation site [posttranslational modification] 1104322000091 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1104322000092 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1104322000093 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1104322000094 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1104322000095 PGAP1-like protein; Region: PGAP1; pfam07819 1104322000096 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322000097 MULE transposase domain; Region: MULE; pfam10551 1104322000098 putative transposase OrfB; Reviewed; Region: PHA02517 1104322000099 HTH-like domain; Region: HTH_21; pfam13276 1104322000100 Integrase core domain; Region: rve; pfam00665 1104322000101 Integrase core domain; Region: rve_3; pfam13683 1104322000102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322000103 Transposase; Region: HTH_Tnp_1; pfam01527 1104322000104 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1104322000105 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322000106 Coenzyme A binding pocket [chemical binding]; other site 1104322000107 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 1104322000108 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1104322000109 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1104322000110 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1104322000111 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1104322000112 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322000113 Coenzyme A binding pocket [chemical binding]; other site 1104322000114 aromatic amino acid aminotransferase; Validated; Region: PRK07309 1104322000115 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1104322000116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322000117 homodimer interface [polypeptide binding]; other site 1104322000118 catalytic residue [active] 1104322000119 Recombination protein O N terminal; Region: RecO_N; pfam11967 1104322000120 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 1104322000121 Recombination protein O C terminal; Region: RecO_C; pfam02565 1104322000122 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1104322000123 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1104322000124 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104322000125 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104322000126 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1104322000127 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1104322000128 E3 interaction surface; other site 1104322000129 lipoyl attachment site [posttranslational modification]; other site 1104322000130 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1104322000131 E3 interaction surface; other site 1104322000132 lipoyl attachment site [posttranslational modification]; other site 1104322000133 e3 binding domain; Region: E3_binding; pfam02817 1104322000134 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1104322000135 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1104322000136 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1104322000137 TPP binding site [chemical binding]; other site 1104322000138 alpha subunit interface [polypeptide binding]; other site 1104322000139 heterodimer interface [polypeptide binding]; other site 1104322000140 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104322000141 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1104322000142 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1104322000143 tetramer interface [polypeptide binding]; other site 1104322000144 TPP-binding site [chemical binding]; other site 1104322000145 heterodimer interface [polypeptide binding]; other site 1104322000146 phosphorylation loop region [posttranslational modification] 1104322000147 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1104322000148 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1104322000149 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1104322000150 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1104322000151 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 1104322000152 active site 1104322000153 catalytic site [active] 1104322000154 metal binding site [ion binding]; metal-binding site 1104322000155 dimer interface [polypeptide binding]; other site 1104322000156 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1104322000157 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104322000158 Zn2+ binding site [ion binding]; other site 1104322000159 Mg2+ binding site [ion binding]; other site 1104322000160 putative transposase OrfB; Reviewed; Region: PHA02517 1104322000161 HTH-like domain; Region: HTH_21; pfam13276 1104322000162 Integrase core domain; Region: rve; pfam00665 1104322000163 Integrase core domain; Region: rve_3; pfam13683 1104322000164 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322000165 Transposase; Region: HTH_Tnp_1; pfam01527 1104322000166 putative transposase OrfB; Reviewed; Region: PHA02517 1104322000167 HTH-like domain; Region: HTH_21; pfam13276 1104322000168 Integrase core domain; Region: rve; pfam00665 1104322000169 Integrase core domain; Region: rve_2; pfam13333 1104322000170 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322000171 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322000172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322000173 Homeodomain-like domain; Region: HTH_23; cl17451 1104322000174 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322000175 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322000176 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1104322000177 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1104322000178 active site 1104322000179 HIGH motif; other site 1104322000180 dimer interface [polypeptide binding]; other site 1104322000181 KMSKS motif; other site 1104322000182 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1104322000183 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1104322000184 putative phosphate acyltransferase; Provisional; Region: PRK05331 1104322000185 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1104322000186 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1104322000187 active site 1104322000188 motif I; other site 1104322000189 motif II; other site 1104322000190 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104322000191 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1104322000192 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322000193 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322000194 ABC transporter; Region: ABC_tran_2; pfam12848 1104322000195 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322000196 yiaA/B two helix domain; Region: YiaAB; pfam05360 1104322000197 short chain dehydrogenase; Validated; Region: PRK06182 1104322000198 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1104322000199 NADP binding site [chemical binding]; other site 1104322000200 active site 1104322000201 steroid binding site; other site 1104322000202 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104322000203 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104322000204 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322000205 MULE transposase domain; Region: MULE; pfam10551 1104322000206 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1104322000207 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1104322000208 homodimer interface [polypeptide binding]; other site 1104322000209 substrate-cofactor binding pocket; other site 1104322000210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322000211 catalytic residue [active] 1104322000212 short chain dehydrogenase; Validated; Region: PRK06182 1104322000213 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1104322000214 NADP binding site [chemical binding]; other site 1104322000215 active site 1104322000216 steroid binding site; other site 1104322000217 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322000218 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322000219 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1104322000220 Ligand Binding Site [chemical binding]; other site 1104322000221 Predicted esterase [General function prediction only]; Region: COG0400 1104322000222 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1104322000223 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104322000224 Zn binding site [ion binding]; other site 1104322000225 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1104322000226 Zn binding site [ion binding]; other site 1104322000227 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1104322000228 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1104322000229 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322000230 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1104322000231 Int/Topo IB signature motif; other site 1104322000232 Plasmid replication protein; Region: Rep_2; pfam01719 1104322000233 RNA helicase; Region: RNA_helicase; pfam00910 1104322000234 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1104322000235 putative transposase OrfB; Reviewed; Region: PHA02517 1104322000236 HTH-like domain; Region: HTH_21; pfam13276 1104322000237 Integrase core domain; Region: rve; pfam00665 1104322000238 Integrase core domain; Region: rve_2; pfam13333 1104322000239 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322000240 MULE transposase domain; Region: MULE; pfam10551 1104322000241 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1104322000242 catalytic triad [active] 1104322000243 polysaccharide export protein, MPA1 family, Gram-positive type; Region: polys_exp_MPA1; TIGR01006 1104322000244 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1104322000245 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1104322000246 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104322000247 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1104322000248 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1104322000249 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1104322000250 Bacterial sugar transferase; Region: Bac_transf; cl00939 1104322000251 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1104322000252 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1104322000253 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104322000254 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1104322000255 putative NAD(P) binding site [chemical binding]; other site 1104322000256 active site 1104322000257 putative substrate binding site [chemical binding]; other site 1104322000258 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1104322000259 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1104322000260 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1104322000261 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1104322000262 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1104322000263 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1104322000264 NAD(P) binding site [chemical binding]; other site 1104322000265 homodimer interface [polypeptide binding]; other site 1104322000266 substrate binding site [chemical binding]; other site 1104322000267 active site 1104322000268 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1104322000269 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1104322000270 putative trimer interface [polypeptide binding]; other site 1104322000271 putative CoA binding site [chemical binding]; other site 1104322000272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322000273 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104322000274 NAD(P) binding site [chemical binding]; other site 1104322000275 active site 1104322000276 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1104322000277 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1104322000278 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1104322000279 active site 1104322000280 homodimer interface [polypeptide binding]; other site 1104322000281 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1104322000282 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1104322000283 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1104322000284 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104322000285 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1104322000286 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1104322000287 trimer interface [polypeptide binding]; other site 1104322000288 active site 1104322000289 substrate binding site [chemical binding]; other site 1104322000290 CoA binding site [chemical binding]; other site 1104322000291 potential frameshift: common BLAST hit: gi|331268896|ref|YP_004395388.1| putative glycosyltransferase 1104322000292 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1104322000293 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1104322000294 putative ADP-binding pocket [chemical binding]; other site 1104322000295 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104322000296 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1104322000297 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104322000298 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1104322000299 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322000300 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322000301 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 1104322000302 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1104322000303 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1104322000304 HTH-like domain; Region: HTH_21; pfam13276 1104322000305 Integrase core domain; Region: rve; pfam00665 1104322000306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322000307 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322000308 putative transposase OrfB; Reviewed; Region: PHA02517 1104322000309 HTH-like domain; Region: HTH_21; pfam13276 1104322000310 Integrase core domain; Region: rve; pfam00665 1104322000311 Integrase core domain; Region: rve_3; pfam13683 1104322000312 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322000313 Transposase; Region: HTH_Tnp_1; pfam01527 1104322000314 Transposase domain (DUF772); Region: DUF772; pfam05598 1104322000315 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1104322000316 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322000317 DDE superfamily endonuclease; Region: DDE_4; cl17710 1104322000318 Integrase core domain; Region: rve; pfam00665 1104322000319 putative transposase OrfB; Reviewed; Region: PHA02517 1104322000320 HTH-like domain; Region: HTH_21; pfam13276 1104322000321 Integrase core domain; Region: rve; pfam00665 1104322000322 Integrase core domain; Region: rve_3; pfam13683 1104322000323 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322000324 Transposase; Region: HTH_Tnp_1; pfam01527 1104322000325 Transposase; Region: HTH_Tnp_1; cl17663 1104322000326 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 1104322000327 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1104322000328 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1104322000329 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1104322000330 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1104322000331 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104322000332 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104322000333 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 1104322000334 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1104322000335 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1104322000336 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1104322000337 ParB-like nuclease domain; Region: ParBc; pfam02195 1104322000338 KorB domain; Region: KorB; pfam08535 1104322000339 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 1104322000340 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322000341 Walker A motif; other site 1104322000342 ATP binding site [chemical binding]; other site 1104322000343 Walker B motif; other site 1104322000344 arginine finger; other site 1104322000345 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1104322000346 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1104322000347 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322000348 Coenzyme A binding pocket [chemical binding]; other site 1104322000349 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 1104322000350 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104322000351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322000352 Walker A/P-loop; other site 1104322000353 ATP binding site [chemical binding]; other site 1104322000354 Q-loop/lid; other site 1104322000355 ABC transporter signature motif; other site 1104322000356 Walker B; other site 1104322000357 D-loop; other site 1104322000358 H-loop/switch region; other site 1104322000359 ABC transporter; Region: ABC_tran_2; pfam12848 1104322000360 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322000361 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1104322000362 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322000363 S-adenosylmethionine binding site [chemical binding]; other site 1104322000364 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 1104322000365 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1104322000366 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1104322000367 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322000368 S-adenosylmethionine binding site [chemical binding]; other site 1104322000369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1104322000370 RNA methyltransferase, RsmE family; Region: TIGR00046 1104322000371 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1104322000372 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1104322000373 putative active site [active] 1104322000374 putative metal binding site [ion binding]; other site 1104322000375 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1104322000376 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104322000377 Zn2+ binding site [ion binding]; other site 1104322000378 Mg2+ binding site [ion binding]; other site 1104322000379 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1104322000380 synthetase active site [active] 1104322000381 NTP binding site [chemical binding]; other site 1104322000382 metal binding site [ion binding]; metal-binding site 1104322000383 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1104322000384 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1104322000385 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1104322000386 Ligand binding site; other site 1104322000387 Putative Catalytic site; other site 1104322000388 DXD motif; other site 1104322000389 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1104322000390 putative active site [active] 1104322000391 dimerization interface [polypeptide binding]; other site 1104322000392 putative tRNAtyr binding site [nucleotide binding]; other site 1104322000393 Predicted integral membrane protein [Function unknown]; Region: COG3548 1104322000394 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1104322000395 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322000396 amino acid transporter; Region: 2A0306; TIGR00909 1104322000397 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1104322000398 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1104322000399 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1104322000400 putative acyl-acceptor binding pocket; other site 1104322000401 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104322000402 MarR family; Region: MarR_2; pfam12802 1104322000403 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1104322000404 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1104322000405 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1104322000406 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1104322000407 nucleotide binding region [chemical binding]; other site 1104322000408 ATP-binding site [chemical binding]; other site 1104322000409 SEC-C motif; Region: SEC-C; pfam02810 1104322000410 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 1104322000411 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1104322000412 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1104322000413 dimerization domain swap beta strand [polypeptide binding]; other site 1104322000414 regulatory protein interface [polypeptide binding]; other site 1104322000415 active site 1104322000416 regulatory phosphorylation site [posttranslational modification]; other site 1104322000417 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1104322000418 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1104322000419 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1104322000420 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1104322000421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0718 1104322000422 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104322000423 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1104322000424 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 1104322000425 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1104322000426 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322000427 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104322000428 putative substrate translocation pore; other site 1104322000429 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322000430 Transposase; Region: HTH_Tnp_1; pfam01527 1104322000431 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1104322000432 Integrase core domain; Region: rve; pfam00665 1104322000433 Integrase core domain; Region: rve_3; pfam13683 1104322000434 conserved hypothetical integral membrane protein; Region: TIGR03766 1104322000435 argininosuccinate synthase; Provisional; Region: PRK13820 1104322000436 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1104322000437 ANP binding site [chemical binding]; other site 1104322000438 Substrate Binding Site II [chemical binding]; other site 1104322000439 Substrate Binding Site I [chemical binding]; other site 1104322000440 argininosuccinate lyase; Provisional; Region: PRK00855 1104322000441 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1104322000442 active sites [active] 1104322000443 tetramer interface [polypeptide binding]; other site 1104322000444 drug efflux system protein MdtG; Provisional; Region: PRK09874 1104322000445 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322000446 putative substrate translocation pore; other site 1104322000447 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104322000448 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104322000449 WHG domain; Region: WHG; pfam13305 1104322000450 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1104322000451 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1104322000452 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1104322000453 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1104322000454 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1104322000455 G-X-X-G motif; other site 1104322000456 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 1104322000457 RxxxH motif; other site 1104322000458 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1104322000459 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1104322000460 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104322000461 active site 1104322000462 catalytic tetrad [active] 1104322000463 COMC family; Region: ComC; pfam03047 1104322000464 CAAX protease self-immunity; Region: Abi; pfam02517 1104322000465 hypothetical protein; Provisional; Region: PRK05473 1104322000466 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1104322000467 hypothetical protein; Provisional; Region: PRK13678 1104322000468 Predicted integral membrane protein [Function unknown]; Region: COG3548 1104322000469 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1104322000470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322000471 NAD(P) binding site [chemical binding]; other site 1104322000472 active site 1104322000473 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; pfam10078 1104322000474 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 1104322000475 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322000476 active site 1104322000477 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104322000478 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104322000479 putative DNA binding site [nucleotide binding]; other site 1104322000480 putative Zn2+ binding site [ion binding]; other site 1104322000481 glycogen branching enzyme; Provisional; Region: PRK12313 1104322000482 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1104322000483 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 1104322000484 active site 1104322000485 catalytic site [active] 1104322000486 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1104322000487 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1104322000488 FMN binding site [chemical binding]; other site 1104322000489 dimer interface [polypeptide binding]; other site 1104322000490 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104322000491 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104322000492 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 1104322000493 Collagen binding domain; Region: Collagen_bind; pfam05737 1104322000494 Collagen binding domain; Region: Collagen_bind; pfam05737 1104322000495 Collagen binding domain; Region: Collagen_bind; pfam05737 1104322000496 Cna protein B-type domain; Region: Cna_B; pfam05738 1104322000497 Cna protein B-type domain; Region: Cna_B; pfam05738 1104322000498 Cna protein B-type domain; Region: Cna_B; pfam05738 1104322000499 Cna protein B-type domain; Region: Cna_B; pfam05738 1104322000500 Cna protein B-type domain; Region: Cna_B; pfam05738 1104322000501 Cna protein B-type domain; Region: Cna_B; pfam05738 1104322000502 Cna protein B-type domain; Region: Cna_B; pfam05738 1104322000503 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1104322000504 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1104322000505 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1104322000506 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322000507 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322000508 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322000509 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322000510 HTH-like domain; Region: HTH_21; pfam13276 1104322000511 Integrase core domain; Region: rve; pfam00665 1104322000512 Integrase core domain; Region: rve_2; pfam13333 1104322000513 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1104322000514 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104322000515 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322000516 non-specific DNA binding site [nucleotide binding]; other site 1104322000517 salt bridge; other site 1104322000518 sequence-specific DNA binding site [nucleotide binding]; other site 1104322000519 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1104322000520 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1104322000521 Protein of unknown function (DUF975); Region: DUF975; cl10504 1104322000522 potential frameshift: common BLAST hit: gi|116510986|ref|YP_808202.1| major facilitator superfamily permease 1104322000523 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322000524 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104322000525 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1104322000526 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1104322000527 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1104322000528 aminotransferase AlaT; Validated; Region: PRK09265 1104322000529 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1104322000530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322000531 homodimer interface [polypeptide binding]; other site 1104322000532 catalytic residue [active] 1104322000533 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 1104322000534 CodY GAF-like domain; Region: CodY; pfam06018 1104322000535 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 1104322000536 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 1104322000537 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1104322000538 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1104322000539 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1104322000540 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1104322000541 GatB domain; Region: GatB_Yqey; pfam02637 1104322000542 amidase; Provisional; Region: PRK06529 1104322000543 Amidase; Region: Amidase; cl11426 1104322000544 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1104322000545 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1104322000546 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104322000547 DNA-binding site [nucleotide binding]; DNA binding site 1104322000548 RNA-binding motif; other site 1104322000549 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1104322000550 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1104322000551 Rhomboid family; Region: Rhomboid; pfam01694 1104322000552 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 1104322000553 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1104322000554 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104322000555 active site 1104322000556 metal binding site [ion binding]; metal-binding site 1104322000557 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 1104322000558 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1104322000559 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1104322000560 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1104322000561 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1104322000562 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1104322000563 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1104322000564 beta-galactosidase; Region: BGL; TIGR03356 1104322000565 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1104322000566 trimer interface [polypeptide binding]; other site 1104322000567 active site 1104322000568 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1104322000569 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1104322000570 active site 1104322000571 metal binding site [ion binding]; metal-binding site 1104322000572 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1104322000573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 1104322000574 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 1104322000575 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1104322000576 FeS/SAM binding site; other site 1104322000577 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1104322000578 dimer interface [polypeptide binding]; other site 1104322000579 FMN binding site [chemical binding]; other site 1104322000580 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1104322000581 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1104322000582 substrate binding pocket [chemical binding]; other site 1104322000583 chain length determination region; other site 1104322000584 substrate-Mg2+ binding site; other site 1104322000585 catalytic residues [active] 1104322000586 aspartate-rich region 1; other site 1104322000587 active site lid residues [active] 1104322000588 aspartate-rich region 2; other site 1104322000589 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1104322000590 UbiA prenyltransferase family; Region: UbiA; pfam01040 1104322000591 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1104322000592 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1104322000593 G1 box; other site 1104322000594 GTP/Mg2+ binding site [chemical binding]; other site 1104322000595 Switch I region; other site 1104322000596 G2 box; other site 1104322000597 G3 box; other site 1104322000598 Switch II region; other site 1104322000599 G4 box; other site 1104322000600 G5 box; other site 1104322000601 Nucleoside recognition; Region: Gate; pfam07670 1104322000602 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1104322000603 Nucleoside recognition; Region: Gate; pfam07670 1104322000604 FeoA domain; Region: FeoA; pfam04023 1104322000605 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1104322000606 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1104322000607 SelR domain; Region: SelR; pfam01641 1104322000608 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 1104322000609 DAK2 domain; Region: Dak2; pfam02734 1104322000610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1104322000611 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1104322000612 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]; Region: COG4858 1104322000613 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1104322000614 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1104322000615 substrate binding site; other site 1104322000616 tetramer interface; other site 1104322000617 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1104322000618 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1104322000619 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1104322000620 NAD binding site [chemical binding]; other site 1104322000621 substrate binding site [chemical binding]; other site 1104322000622 homodimer interface [polypeptide binding]; other site 1104322000623 active site 1104322000624 Rhamnan synthesis protein F; Region: RgpF; pfam05045 1104322000625 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104322000626 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1104322000627 Rhamnan synthesis protein F; Region: RgpF; pfam05045 1104322000628 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104322000629 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 1104322000630 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1104322000631 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1104322000632 NADP binding site [chemical binding]; other site 1104322000633 active site 1104322000634 putative substrate binding site [chemical binding]; other site 1104322000635 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104322000636 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 1104322000637 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104322000638 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1104322000639 Probable Catalytic site; other site 1104322000640 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1104322000641 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1104322000642 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1104322000643 Walker A/P-loop; other site 1104322000644 ATP binding site [chemical binding]; other site 1104322000645 Q-loop/lid; other site 1104322000646 ABC transporter signature motif; other site 1104322000647 Walker B; other site 1104322000648 D-loop; other site 1104322000649 H-loop/switch region; other site 1104322000650 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 1104322000651 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 1104322000652 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1104322000653 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1104322000654 active site 1104322000655 Rhamnan synthesis protein F; Region: RgpF; pfam05045 1104322000656 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1104322000657 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1104322000658 Ligand binding site; other site 1104322000659 Putative Catalytic site; other site 1104322000660 DXD motif; other site 1104322000661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322000662 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1104322000663 NAD(P) binding site [chemical binding]; other site 1104322000664 active site 1104322000665 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1104322000666 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104322000667 active site 1104322000668 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 1104322000669 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 1104322000670 GDP-Fucose binding site [chemical binding]; other site 1104322000671 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1104322000672 active site 1104322000673 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104322000674 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1104322000675 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1104322000676 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1104322000677 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 1104322000678 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1104322000679 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1104322000680 active site 1104322000681 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1104322000682 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1104322000683 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1104322000684 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1104322000685 active site 1104322000686 GTPase YqeH; Provisional; Region: PRK13796 1104322000687 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1104322000688 GTP/Mg2+ binding site [chemical binding]; other site 1104322000689 G4 box; other site 1104322000690 G5 box; other site 1104322000691 G1 box; other site 1104322000692 Switch I region; other site 1104322000693 G2 box; other site 1104322000694 G3 box; other site 1104322000695 Switch II region; other site 1104322000696 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 1104322000697 nudix motif; other site 1104322000698 GTPases [General function prediction only]; Region: HflX; COG2262 1104322000699 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1104322000700 HflX GTPase family; Region: HflX; cd01878 1104322000701 G1 box; other site 1104322000702 GTP/Mg2+ binding site [chemical binding]; other site 1104322000703 Switch I region; other site 1104322000704 G2 box; other site 1104322000705 G3 box; other site 1104322000706 Switch II region; other site 1104322000707 G4 box; other site 1104322000708 G5 box; other site 1104322000709 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1104322000710 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1104322000711 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1104322000712 active site 1104322000713 (T/H)XGH motif; other site 1104322000714 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104322000715 Zn2+ binding site [ion binding]; other site 1104322000716 Mg2+ binding site [ion binding]; other site 1104322000717 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322000718 Coenzyme A binding pocket [chemical binding]; other site 1104322000719 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1104322000720 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322000721 S-adenosylmethionine binding site [chemical binding]; other site 1104322000722 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1104322000723 hypothetical protein; Provisional; Region: PRK12378 1104322000724 Uncharacterized conserved protein [Function unknown]; Region: COG4832 1104322000725 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1104322000726 ligand binding site [chemical binding]; other site 1104322000727 active site 1104322000728 UGI interface [polypeptide binding]; other site 1104322000729 catalytic site [active] 1104322000730 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1104322000731 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1104322000732 putative NAD(P) binding site [chemical binding]; other site 1104322000733 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 1104322000734 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104322000735 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322000736 putative substrate translocation pore; other site 1104322000737 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322000738 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1104322000739 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1104322000740 DNA binding residues [nucleotide binding] 1104322000741 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1104322000742 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1104322000743 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1104322000744 active site 1104322000745 motif I; other site 1104322000746 motif II; other site 1104322000747 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104322000748 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1104322000749 Phosphoglycerate kinase; Region: PGK; pfam00162 1104322000750 substrate binding site [chemical binding]; other site 1104322000751 hinge regions; other site 1104322000752 ADP binding site [chemical binding]; other site 1104322000753 catalytic site [active] 1104322000754 DhaKLM operon coactivator DhaQ; Provisional; Region: PRK14483 1104322000755 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1104322000756 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1104322000757 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104322000758 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 1104322000759 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1104322000760 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1104322000761 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 1104322000762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 1104322000763 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1104322000764 amphipathic channel; other site 1104322000765 Asn-Pro-Ala signature motifs; other site 1104322000766 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 1104322000767 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1104322000768 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104322000769 Walker A/P-loop; other site 1104322000770 ATP binding site [chemical binding]; other site 1104322000771 Q-loop/lid; other site 1104322000772 ABC transporter signature motif; other site 1104322000773 Walker B; other site 1104322000774 D-loop; other site 1104322000775 H-loop/switch region; other site 1104322000776 potential frameshift: common BLAST hit: gi|116511078|ref|YP_808294.1| ABC transporter permease 1104322000777 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1104322000778 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1104322000779 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1104322000780 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1104322000781 putative RNA binding site [nucleotide binding]; other site 1104322000782 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1104322000783 Uncharacterized protein conserved in bacteria [Carbohydrate transport and metabolism]; Region: Fbp; COG3855 1104322000784 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1104322000785 HI0933-like protein; Region: HI0933_like; pfam03486 1104322000786 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1104322000787 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 1104322000788 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 1104322000789 putative substrate binding site [chemical binding]; other site 1104322000790 putative ATP binding site [chemical binding]; other site 1104322000791 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 1104322000792 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104322000793 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322000794 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322000795 Walker A/P-loop; other site 1104322000796 ATP binding site [chemical binding]; other site 1104322000797 Q-loop/lid; other site 1104322000798 ABC transporter signature motif; other site 1104322000799 Walker B; other site 1104322000800 D-loop; other site 1104322000801 H-loop/switch region; other site 1104322000802 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104322000803 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322000804 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1104322000805 Walker A/P-loop; other site 1104322000806 ATP binding site [chemical binding]; other site 1104322000807 Q-loop/lid; other site 1104322000808 ABC transporter signature motif; other site 1104322000809 Walker B; other site 1104322000810 D-loop; other site 1104322000811 H-loop/switch region; other site 1104322000812 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 1104322000813 putative oxidoreductase; Provisional; Region: PRK10206 1104322000814 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104322000815 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104322000816 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1104322000817 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1104322000818 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1104322000819 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104322000820 active site 1104322000821 catalytic tetrad [active] 1104322000822 Isochorismatase family; Region: Isochorismatase; pfam00857 1104322000823 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1104322000824 catalytic triad [active] 1104322000825 conserved cis-peptide bond; other site 1104322000826 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1104322000827 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104322000828 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104322000829 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104322000830 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322000831 Integrase core domain; Region: rve; pfam00665 1104322000832 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1104322000833 substrate binding site [chemical binding]; other site 1104322000834 activation loop (A-loop); other site 1104322000835 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13642 1104322000836 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1104322000837 Walker A/P-loop; other site 1104322000838 ATP binding site [chemical binding]; other site 1104322000839 Q-loop/lid; other site 1104322000840 ABC transporter signature motif; other site 1104322000841 Walker B; other site 1104322000842 D-loop; other site 1104322000843 H-loop/switch region; other site 1104322000844 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13643 1104322000845 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1104322000846 Walker A/P-loop; other site 1104322000847 ATP binding site [chemical binding]; other site 1104322000848 Q-loop/lid; other site 1104322000849 ABC transporter signature motif; other site 1104322000850 Walker B; other site 1104322000851 D-loop; other site 1104322000852 H-loop/switch region; other site 1104322000853 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1104322000854 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1104322000855 active site 1104322000856 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1104322000857 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1104322000858 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1104322000859 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1104322000860 putative trimer interface [polypeptide binding]; other site 1104322000861 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1104322000862 putative CoA binding site [chemical binding]; other site 1104322000863 putative trimer interface [polypeptide binding]; other site 1104322000864 putative CoA binding site [chemical binding]; other site 1104322000865 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 1104322000866 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1104322000867 metal binding site [ion binding]; metal-binding site 1104322000868 putative dimer interface [polypeptide binding]; other site 1104322000869 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1104322000870 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1104322000871 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 1104322000872 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1104322000873 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1104322000874 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1104322000875 RNA binding surface [nucleotide binding]; other site 1104322000876 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1104322000877 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1104322000878 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1104322000879 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1104322000880 RNA binding site [nucleotide binding]; other site 1104322000881 SprT homologues; Region: SprT; cl01182 1104322000882 hypothetical protein; Provisional; Region: PRK04351 1104322000883 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1104322000884 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 1104322000885 active site 1104322000886 purine riboside binding site [chemical binding]; other site 1104322000887 SnoaL-like domain; Region: SnoaL_4; pfam13577 1104322000888 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1104322000889 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1104322000890 DNA binding residues [nucleotide binding] 1104322000891 putative dimer interface [polypeptide binding]; other site 1104322000892 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1104322000893 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1104322000894 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1104322000895 hypothetical protein; Provisional; Region: PRK13667 1104322000896 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1104322000897 Glycoprotease family; Region: Peptidase_M22; pfam00814 1104322000898 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1104322000899 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322000900 Coenzyme A binding pocket [chemical binding]; other site 1104322000901 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322000902 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1104322000903 Coenzyme A binding pocket [chemical binding]; other site 1104322000904 UGMP family protein; Validated; Region: PRK09604 1104322000905 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1104322000906 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 1104322000907 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1104322000908 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1104322000909 Walker A/P-loop; other site 1104322000910 ATP binding site [chemical binding]; other site 1104322000911 Q-loop/lid; other site 1104322000912 ABC transporter signature motif; other site 1104322000913 Walker B; other site 1104322000914 D-loop; other site 1104322000915 H-loop/switch region; other site 1104322000916 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1104322000917 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322000918 dimer interface [polypeptide binding]; other site 1104322000919 conserved gate region; other site 1104322000920 putative PBP binding loops; other site 1104322000921 ABC-ATPase subunit interface; other site 1104322000922 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1104322000923 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322000924 dimer interface [polypeptide binding]; other site 1104322000925 conserved gate region; other site 1104322000926 ABC-ATPase subunit interface; other site 1104322000927 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1104322000928 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1104322000929 active site 1104322000930 metal binding site [ion binding]; metal-binding site 1104322000931 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1104322000932 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1104322000933 dimer interface [polypeptide binding]; other site 1104322000934 catalytic triad [active] 1104322000935 peroxidatic and resolving cysteines [active] 1104322000936 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1104322000937 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1104322000938 Zn binding site [ion binding]; other site 1104322000939 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322000940 putative substrate translocation pore; other site 1104322000941 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104322000942 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104322000943 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1104322000944 Cation efflux family; Region: Cation_efflux; pfam01545 1104322000945 Predicted transcriptional regulators [Transcription]; Region: COG1695 1104322000946 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1104322000947 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104322000948 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322000949 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322000950 Walker A/P-loop; other site 1104322000951 ATP binding site [chemical binding]; other site 1104322000952 Q-loop/lid; other site 1104322000953 ABC transporter signature motif; other site 1104322000954 Walker B; other site 1104322000955 D-loop; other site 1104322000956 H-loop/switch region; other site 1104322000957 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104322000958 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322000959 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1104322000960 Walker A/P-loop; other site 1104322000961 ATP binding site [chemical binding]; other site 1104322000962 Q-loop/lid; other site 1104322000963 ABC transporter signature motif; other site 1104322000964 Walker B; other site 1104322000965 D-loop; other site 1104322000966 H-loop/switch region; other site 1104322000967 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1104322000968 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 1104322000969 hinge; other site 1104322000970 active site 1104322000971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4443 1104322000972 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322000973 Transposase; Region: HTH_Tnp_1; pfam01527 1104322000974 putative transposase OrfB; Reviewed; Region: PHA02517 1104322000975 HTH-like domain; Region: HTH_21; pfam13276 1104322000976 Integrase core domain; Region: rve; pfam00665 1104322000977 Integrase core domain; Region: rve_3; pfam13683 1104322000978 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 1104322000979 ATP binding site [chemical binding]; other site 1104322000980 H+ Antiporter protein; Region: 2A0121; TIGR00900 1104322000981 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1104322000982 BioY family; Region: BioY; pfam02632 1104322000983 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1104322000984 putative deacylase active site [active] 1104322000985 Predicted membrane protein [Function unknown]; Region: COG3859 1104322000986 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1104322000987 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1104322000988 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1104322000989 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1104322000990 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1104322000991 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1104322000992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322000993 acetoin reductases; Region: 23BDH; TIGR02415 1104322000994 NAD(P) binding site [chemical binding]; other site 1104322000995 active site 1104322000996 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1104322000997 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1104322000998 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1104322000999 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1104322001000 Walker A/P-loop; other site 1104322001001 ATP binding site [chemical binding]; other site 1104322001002 Q-loop/lid; other site 1104322001003 ABC transporter signature motif; other site 1104322001004 Walker B; other site 1104322001005 D-loop; other site 1104322001006 H-loop/switch region; other site 1104322001007 NIL domain; Region: NIL; pfam09383 1104322001008 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 1104322001009 hypothetical protein; Provisional; Region: PRK13661 1104322001010 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1104322001011 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1104322001012 Q-loop/lid; other site 1104322001013 ABC transporter signature motif; other site 1104322001014 Walker B; other site 1104322001015 D-loop; other site 1104322001016 H-loop/switch region; other site 1104322001017 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 1104322001018 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1104322001019 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1104322001020 Walker A/P-loop; other site 1104322001021 ATP binding site [chemical binding]; other site 1104322001022 Q-loop/lid; other site 1104322001023 ABC transporter signature motif; other site 1104322001024 Walker B; other site 1104322001025 D-loop; other site 1104322001026 H-loop/switch region; other site 1104322001027 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1104322001028 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104322001029 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322001030 non-specific DNA binding site [nucleotide binding]; other site 1104322001031 salt bridge; other site 1104322001032 sequence-specific DNA binding site [nucleotide binding]; other site 1104322001033 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1104322001034 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1104322001035 Walker A/P-loop; other site 1104322001036 ATP binding site [chemical binding]; other site 1104322001037 Q-loop/lid; other site 1104322001038 ABC transporter signature motif; other site 1104322001039 Walker B; other site 1104322001040 D-loop; other site 1104322001041 H-loop/switch region; other site 1104322001042 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1104322001043 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1104322001044 ABC-ATPase subunit interface; other site 1104322001045 dimer interface [polypeptide binding]; other site 1104322001046 putative PBP binding regions; other site 1104322001047 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1104322001048 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1104322001049 ABC-ATPase subunit interface; other site 1104322001050 dimer interface [polypeptide binding]; other site 1104322001051 putative PBP binding regions; other site 1104322001052 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 1104322001053 putative ligand binding residues [chemical binding]; other site 1104322001054 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1104322001055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104322001056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104322001057 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1104322001058 dimerization interface [polypeptide binding]; other site 1104322001059 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322001060 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322001061 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1104322001062 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322001063 putative substrate translocation pore; other site 1104322001064 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1104322001065 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104322001066 active site 1104322001067 catalytic tetrad [active] 1104322001068 Predicted transcriptional regulators [Transcription]; Region: COG1733 1104322001069 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1104322001070 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1104322001071 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104322001072 putative metal binding site [ion binding]; other site 1104322001073 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1104322001074 catalytic core [active] 1104322001075 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1104322001076 peroxiredoxin; Region: AhpC; TIGR03137 1104322001077 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1104322001078 dimer interface [polypeptide binding]; other site 1104322001079 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1104322001080 catalytic triad [active] 1104322001081 peroxidatic and resolving cysteines [active] 1104322001082 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1104322001083 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1104322001084 catalytic residue [active] 1104322001085 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1104322001086 catalytic residues [active] 1104322001087 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104322001088 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104322001089 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1104322001090 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1104322001091 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104322001092 recombination protein RecR; Reviewed; Region: recR; PRK00076 1104322001093 RecR protein; Region: RecR; pfam02132 1104322001094 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 1104322001095 putative active site [active] 1104322001096 putative metal-binding site [ion binding]; other site 1104322001097 tetramer interface [polypeptide binding]; other site 1104322001098 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1104322001099 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1104322001100 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1104322001101 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1104322001102 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104322001103 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104322001104 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104322001105 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104322001106 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1104322001107 peptide binding site [polypeptide binding]; other site 1104322001108 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1104322001109 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104322001110 peptide binding site [polypeptide binding]; other site 1104322001111 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104322001112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322001113 dimer interface [polypeptide binding]; other site 1104322001114 conserved gate region; other site 1104322001115 putative PBP binding loops; other site 1104322001116 ABC-ATPase subunit interface; other site 1104322001117 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104322001118 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1104322001119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322001120 dimer interface [polypeptide binding]; other site 1104322001121 conserved gate region; other site 1104322001122 putative PBP binding loops; other site 1104322001123 ABC-ATPase subunit interface; other site 1104322001124 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104322001125 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104322001126 Walker A/P-loop; other site 1104322001127 ATP binding site [chemical binding]; other site 1104322001128 Q-loop/lid; other site 1104322001129 ABC transporter signature motif; other site 1104322001130 Walker B; other site 1104322001131 D-loop; other site 1104322001132 H-loop/switch region; other site 1104322001133 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104322001134 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104322001135 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104322001136 Walker A/P-loop; other site 1104322001137 ATP binding site [chemical binding]; other site 1104322001138 Q-loop/lid; other site 1104322001139 ABC transporter signature motif; other site 1104322001140 Walker B; other site 1104322001141 D-loop; other site 1104322001142 H-loop/switch region; other site 1104322001143 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104322001144 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1104322001145 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1104322001146 G1 box; other site 1104322001147 putative GEF interaction site [polypeptide binding]; other site 1104322001148 GTP/Mg2+ binding site [chemical binding]; other site 1104322001149 Switch I region; other site 1104322001150 G2 box; other site 1104322001151 G3 box; other site 1104322001152 Switch II region; other site 1104322001153 G4 box; other site 1104322001154 G5 box; other site 1104322001155 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1104322001156 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1104322001157 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1104322001158 ATP binding site [chemical binding]; other site 1104322001159 Mg++ binding site [ion binding]; other site 1104322001160 motif III; other site 1104322001161 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1104322001162 nucleotide binding region [chemical binding]; other site 1104322001163 ATP-binding site [chemical binding]; other site 1104322001164 GTPase Era; Reviewed; Region: era; PRK00089 1104322001165 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1104322001166 G1 box; other site 1104322001167 GTP/Mg2+ binding site [chemical binding]; other site 1104322001168 Switch I region; other site 1104322001169 G2 box; other site 1104322001170 Switch II region; other site 1104322001171 G3 box; other site 1104322001172 G4 box; other site 1104322001173 G5 box; other site 1104322001174 KH domain; Region: KH_2; pfam07650 1104322001175 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1104322001176 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1104322001177 dimer interface [polypeptide binding]; other site 1104322001178 active site 1104322001179 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1104322001180 Ligand Binding Site [chemical binding]; other site 1104322001181 Molecular Tunnel; other site 1104322001182 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1104322001183 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1104322001184 DNA binding site [nucleotide binding] 1104322001185 catalytic residue [active] 1104322001186 H2TH interface [polypeptide binding]; other site 1104322001187 putative catalytic residues [active] 1104322001188 turnover-facilitating residue; other site 1104322001189 intercalation triad [nucleotide binding]; other site 1104322001190 8OG recognition residue [nucleotide binding]; other site 1104322001191 putative reading head residues; other site 1104322001192 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1104322001193 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1104322001194 recombinase A; Provisional; Region: recA; PRK09354 1104322001195 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 1104322001196 hexamer interface [polypeptide binding]; other site 1104322001197 Walker A motif; other site 1104322001198 ATP binding site [chemical binding]; other site 1104322001199 Walker B motif; other site 1104322001200 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1104322001201 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1104322001202 Protein of unknown function (DUF964); Region: DUF964; cl01483 1104322001203 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 1104322001204 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1104322001205 putative active site [active] 1104322001206 putative triphosphate binding site [ion binding]; other site 1104322001207 putative metal binding residues [ion binding]; other site 1104322001208 Protein of unknown function (DUF817); Region: DUF817; pfam05675 1104322001209 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322001210 MULE transposase domain; Region: MULE; pfam10551 1104322001211 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1104322001212 synthetase active site [active] 1104322001213 NTP binding site [chemical binding]; other site 1104322001214 metal binding site [ion binding]; metal-binding site 1104322001215 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1104322001216 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1104322001217 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1104322001218 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1104322001219 active site 1104322001220 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1104322001221 active site 1104322001222 lysine transporter; Provisional; Region: PRK10836 1104322001223 Predicted flavoprotein [General function prediction only]; Region: COG0431 1104322001224 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1104322001225 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1104322001226 ApbE family; Region: ApbE; pfam02424 1104322001227 putative transposase OrfB; Reviewed; Region: PHA02517 1104322001228 HTH-like domain; Region: HTH_21; pfam13276 1104322001229 Integrase core domain; Region: rve; pfam00665 1104322001230 Integrase core domain; Region: rve_2; pfam13333 1104322001231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322001232 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322001233 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322001234 Homeodomain-like domain; Region: HTH_23; cl17451 1104322001235 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1104322001236 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1104322001237 dimer interface [polypeptide binding]; other site 1104322001238 putative anticodon binding site; other site 1104322001239 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1104322001240 motif 1; other site 1104322001241 active site 1104322001242 motif 2; other site 1104322001243 motif 3; other site 1104322001244 potential frameshift: common BLAST hit: gi|125623259|ref|YP_001031742.1| LysR family transcriptional regulator 1104322001245 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104322001246 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1104322001247 dimerization interface [polypeptide binding]; other site 1104322001248 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104322001249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104322001250 Predicted membrane protein [Function unknown]; Region: COG2855 1104322001251 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1104322001252 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322001253 MULE transposase domain; Region: MULE; pfam10551 1104322001254 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1104322001255 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1104322001256 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104322001257 NAD binding site [chemical binding]; other site 1104322001258 dimer interface [polypeptide binding]; other site 1104322001259 substrate binding site [chemical binding]; other site 1104322001260 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104322001261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104322001262 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1104322001263 dimerization interface [polypeptide binding]; other site 1104322001264 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322001265 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322001266 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1104322001267 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 1104322001268 gating phenylalanine in ion channel; other site 1104322001269 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1104322001270 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1104322001271 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1104322001272 Ligand Binding Site [chemical binding]; other site 1104322001273 potential frameshift: common BLAST hit: gi|15672362|ref|NP_266536.1| efflux pump antibiotic resistance protein 1104322001274 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1104322001275 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322001276 putative substrate translocation pore; other site 1104322001277 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1104322001278 OsmC-like protein; Region: OsmC; cl00767 1104322001279 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1104322001280 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1104322001281 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1104322001282 active site 1104322001283 HIGH motif; other site 1104322001284 dimer interface [polypeptide binding]; other site 1104322001285 KMSKS motif; other site 1104322001286 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1104322001287 RNA binding surface [nucleotide binding]; other site 1104322001288 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1104322001289 Transglycosylase; Region: Transgly; pfam00912 1104322001290 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1104322001291 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1104322001292 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1104322001293 oligomer interface [polypeptide binding]; other site 1104322001294 active site 1104322001295 metal binding site [ion binding]; metal-binding site 1104322001296 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1104322001297 catalytic residues [active] 1104322001298 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 1104322001299 putative tRNA-binding site [nucleotide binding]; other site 1104322001300 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1104322001301 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104322001302 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104322001303 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104322001304 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1104322001305 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1104322001306 dimer interface [polypeptide binding]; other site 1104322001307 ssDNA binding site [nucleotide binding]; other site 1104322001308 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104322001309 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1104322001310 oligomerisation interface [polypeptide binding]; other site 1104322001311 mobile loop; other site 1104322001312 roof hairpin; other site 1104322001313 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1104322001314 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1104322001315 ring oligomerisation interface [polypeptide binding]; other site 1104322001316 ATP/Mg binding site [chemical binding]; other site 1104322001317 stacking interactions; other site 1104322001318 hinge regions; other site 1104322001319 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1104322001320 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1104322001321 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1104322001322 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1104322001323 putative active site [active] 1104322001324 heme pocket [chemical binding]; other site 1104322001325 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1104322001326 dimer interface [polypeptide binding]; other site 1104322001327 phosphorylation site [posttranslational modification] 1104322001328 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1104322001329 ATP binding site [chemical binding]; other site 1104322001330 Mg2+ binding site [ion binding]; other site 1104322001331 G-X-G motif; other site 1104322001332 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104322001333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104322001334 active site 1104322001335 phosphorylation site [posttranslational modification] 1104322001336 intermolecular recognition site; other site 1104322001337 dimerization interface [polypeptide binding]; other site 1104322001338 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1104322001339 DNA binding site [nucleotide binding] 1104322001340 thymidylate kinase; Validated; Region: tmk; PRK00698 1104322001341 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 1104322001342 TMP-binding site; other site 1104322001343 ATP-binding site [chemical binding]; other site 1104322001344 DNA polymerase III subunit delta'; Validated; Region: PRK07276 1104322001345 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1104322001346 PSP1 C-terminal conserved region; Region: PSP1; cl00770 1104322001347 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467 1104322001348 Predicted methyltransferases [General function prediction only]; Region: COG0313 1104322001349 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1104322001350 putative SAM binding site [chemical binding]; other site 1104322001351 putative homodimer interface [polypeptide binding]; other site 1104322001352 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1104322001353 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1104322001354 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322001355 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1104322001356 Walker A/P-loop; other site 1104322001357 ATP binding site [chemical binding]; other site 1104322001358 Q-loop/lid; other site 1104322001359 ABC transporter signature motif; other site 1104322001360 Walker B; other site 1104322001361 D-loop; other site 1104322001362 H-loop/switch region; other site 1104322001363 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1104322001364 MarR family; Region: MarR_2; pfam12802 1104322001365 mevalonate kinase; Region: mevalon_kin; TIGR00549 1104322001366 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1104322001367 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1104322001368 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 1104322001369 diphosphomevalonate decarboxylase; Region: PLN02407 1104322001370 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1104322001371 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1104322001372 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1104322001373 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1104322001374 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 1104322001375 homotetramer interface [polypeptide binding]; other site 1104322001376 FMN binding site [chemical binding]; other site 1104322001377 homodimer contacts [polypeptide binding]; other site 1104322001378 putative active site [active] 1104322001379 putative substrate binding site [chemical binding]; other site 1104322001380 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1104322001381 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1104322001382 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1104322001383 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1104322001384 Carbon starvation protein CstA; Region: CstA; pfam02554 1104322001385 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1104322001386 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1104322001387 potential frameshift: common BLAST hit: gi|125623299|ref|YP_001031782.1| transcriptional regulator 1104322001388 HTH domain; Region: HTH_11; pfam08279 1104322001389 WYL domain; Region: WYL; pfam13280 1104322001390 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1104322001391 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1104322001392 ATP binding site [chemical binding]; other site 1104322001393 Mg++ binding site [ion binding]; other site 1104322001394 motif III; other site 1104322001395 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1104322001396 nucleotide binding region [chemical binding]; other site 1104322001397 ATP-binding site [chemical binding]; other site 1104322001398 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1104322001399 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1104322001400 putative active site [active] 1104322001401 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104322001402 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104322001403 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104322001404 putative active site [active] 1104322001405 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1104322001406 active site 1104322001407 P-loop; other site 1104322001408 phosphorylation site [posttranslational modification] 1104322001409 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 1104322001410 active site 1104322001411 methionine cluster; other site 1104322001412 phosphorylation site [posttranslational modification] 1104322001413 metal binding site [ion binding]; metal-binding site 1104322001414 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104322001415 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104322001416 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104322001417 putative active site [active] 1104322001418 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1104322001419 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1104322001420 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 1104322001421 beta-galactosidase; Region: BGL; TIGR03356 1104322001422 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1104322001423 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 1104322001424 nucleotide binding pocket [chemical binding]; other site 1104322001425 K-X-D-G motif; other site 1104322001426 catalytic site [active] 1104322001427 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1104322001428 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1104322001429 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 1104322001430 BRCT sequence motif; other site 1104322001431 putative lipid kinase; Reviewed; Region: PRK13055 1104322001432 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1104322001433 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1104322001434 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1104322001435 Walker A/P-loop; other site 1104322001436 ATP binding site [chemical binding]; other site 1104322001437 Q-loop/lid; other site 1104322001438 ABC transporter signature motif; other site 1104322001439 Walker B; other site 1104322001440 D-loop; other site 1104322001441 H-loop/switch region; other site 1104322001442 TOBE domain; Region: TOBE_2; pfam08402 1104322001443 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1104322001444 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1104322001445 dimer interface [polypeptide binding]; other site 1104322001446 PYR/PP interface [polypeptide binding]; other site 1104322001447 TPP binding site [chemical binding]; other site 1104322001448 substrate binding site [chemical binding]; other site 1104322001449 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1104322001450 Domain of unknown function; Region: EKR; smart00890 1104322001451 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1104322001452 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1104322001453 TPP-binding site [chemical binding]; other site 1104322001454 dimer interface [polypeptide binding]; other site 1104322001455 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322001456 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322001457 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1104322001458 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1104322001459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1104322001460 YbbR-like protein; Region: YbbR; pfam07949 1104322001461 YbbR-like protein; Region: YbbR; pfam07949 1104322001462 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1104322001463 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1104322001464 active site 1104322001465 substrate binding site [chemical binding]; other site 1104322001466 metal binding site [ion binding]; metal-binding site 1104322001467 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104322001468 DNA-binding site [nucleotide binding]; DNA binding site 1104322001469 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 1104322001470 UTRA domain; Region: UTRA; pfam07702 1104322001471 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1104322001472 HPr interaction site; other site 1104322001473 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104322001474 active site 1104322001475 phosphorylation site [posttranslational modification] 1104322001476 potential frameshift: common BLAST hit: gi|116511289|ref|YP_808505.1| beta-glucoside-specific PTS system IIABC component 1104322001477 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104322001478 active site turn [active] 1104322001479 phosphorylation site [posttranslational modification] 1104322001480 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104322001481 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1104322001482 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 1104322001483 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1104322001484 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1104322001485 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1104322001486 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1104322001487 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322001488 motif II; other site 1104322001489 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1104322001490 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1104322001491 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1104322001492 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1104322001493 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322001494 Coenzyme A binding pocket [chemical binding]; other site 1104322001495 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1104322001496 potential frameshift: common BLAST hit: gi|15672418|ref|NP_266592.1| integrase 1104322001497 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322001498 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322001499 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322001500 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104322001501 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322001502 non-specific DNA binding site [nucleotide binding]; other site 1104322001503 salt bridge; other site 1104322001504 sequence-specific DNA binding site [nucleotide binding]; other site 1104322001505 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1104322001506 Catalytic site [active] 1104322001507 Lactococcus bacteriophage putative transcription regulator; Region: Phage_Treg; cl11500 1104322001508 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322001509 Integrase core domain; Region: rve; pfam00665 1104322001510 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1104322001511 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104322001512 HTH-like domain; Region: HTH_21; pfam13276 1104322001513 Integrase core domain; Region: rve; pfam00665 1104322001514 Integrase core domain; Region: rve_2; pfam13333 1104322001515 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322001516 MULE transposase domain; Region: MULE; pfam10551 1104322001517 conserved hypothetical integral membrane protein; Region: TIGR03766 1104322001518 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1104322001519 DXD motif; other site 1104322001520 Putative Catalytic site; other site 1104322001521 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1104322001522 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 1104322001523 putative RNA binding site [nucleotide binding]; other site 1104322001524 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322001525 S-adenosylmethionine binding site [chemical binding]; other site 1104322001526 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1104322001527 active site 1104322001528 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1104322001529 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1104322001530 active site 1104322001531 ATP binding site [chemical binding]; other site 1104322001532 substrate binding site [chemical binding]; other site 1104322001533 activation loop (A-loop); other site 1104322001534 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1104322001535 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1104322001536 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1104322001537 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 1104322001538 16S/18S rRNA binding site [nucleotide binding]; other site 1104322001539 S13e-L30e interaction site [polypeptide binding]; other site 1104322001540 25S rRNA binding site [nucleotide binding]; other site 1104322001541 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1104322001542 pyrroline-5-carboxylate reductase; Region: PLN02688 1104322001543 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1104322001544 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1104322001545 Substrate binding site; other site 1104322001546 Mg++ binding site; other site 1104322001547 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1104322001548 active site 1104322001549 substrate binding site [chemical binding]; other site 1104322001550 CoA binding site [chemical binding]; other site 1104322001551 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1104322001552 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1104322001553 dimer interface [polypeptide binding]; other site 1104322001554 ADP-ribose binding site [chemical binding]; other site 1104322001555 active site 1104322001556 nudix motif; other site 1104322001557 metal binding site [ion binding]; metal-binding site 1104322001558 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1104322001559 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1104322001560 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104322001561 Zn2+ binding site [ion binding]; other site 1104322001562 Mg2+ binding site [ion binding]; other site 1104322001563 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 1104322001564 trimer interface [polypeptide binding]; other site 1104322001565 active site 1104322001566 G bulge; other site 1104322001567 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1104322001568 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1104322001569 DNA binding residues [nucleotide binding] 1104322001570 potential frameshift: common BLAST hit: gi|281492489|ref|YP_003354469.1| LysR family transcriptional regulator 1104322001571 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104322001572 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104322001573 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1104322001574 dimerization interface [polypeptide binding]; other site 1104322001575 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104322001576 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322001577 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322001578 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1104322001579 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104322001580 active site 1104322001581 catalytic tetrad [active] 1104322001582 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1104322001583 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322001584 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322001585 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1104322001586 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1104322001587 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1104322001588 EDD domain protein, DegV family; Region: DegV; TIGR00762 1104322001589 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1104322001590 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1104322001591 Cell division protein FtsA; Region: FtsA; smart00842 1104322001592 Cell division protein FtsA; Region: FtsA; pfam14450 1104322001593 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 1104322001594 cell division protein FtsZ; Validated; Region: PRK09330 1104322001595 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 1104322001596 nucleotide binding site [chemical binding]; other site 1104322001597 SulA interaction site; other site 1104322001598 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1104322001599 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104322001600 catalytic residue [active] 1104322001601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1104322001602 YGGT family; Region: YGGT; pfam02325 1104322001603 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1104322001604 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1104322001605 RNA binding surface [nucleotide binding]; other site 1104322001606 DivIVA protein; Region: DivIVA; pfam05103 1104322001607 DivIVA domain; Region: DivI1A_domain; TIGR03544 1104322001608 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1104322001609 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104322001610 active site 1104322001611 HIGH motif; other site 1104322001612 nucleotide binding site [chemical binding]; other site 1104322001613 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1104322001614 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1104322001615 active site 1104322001616 KMSKS motif; other site 1104322001617 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1104322001618 tRNA binding surface [nucleotide binding]; other site 1104322001619 anticodon binding site; other site 1104322001620 elongation factor Tu; Reviewed; Region: PRK00049 1104322001621 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1104322001622 G1 box; other site 1104322001623 GEF interaction site [polypeptide binding]; other site 1104322001624 GTP/Mg2+ binding site [chemical binding]; other site 1104322001625 Switch I region; other site 1104322001626 G2 box; other site 1104322001627 G3 box; other site 1104322001628 Switch II region; other site 1104322001629 G4 box; other site 1104322001630 G5 box; other site 1104322001631 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1104322001632 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1104322001633 Antibiotic Binding Site [chemical binding]; other site 1104322001634 Putative amino acid metabolism; Region: DUF1831; pfam08866 1104322001635 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1104322001636 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104322001637 catalytic residue [active] 1104322001638 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1104322001639 Ligand Binding Site [chemical binding]; other site 1104322001640 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 1104322001641 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1104322001642 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322001643 active site 1104322001644 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1104322001645 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1104322001646 RNase E interface [polypeptide binding]; other site 1104322001647 trimer interface [polypeptide binding]; other site 1104322001648 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1104322001649 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1104322001650 RNase E interface [polypeptide binding]; other site 1104322001651 trimer interface [polypeptide binding]; other site 1104322001652 active site 1104322001653 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1104322001654 putative nucleic acid binding region [nucleotide binding]; other site 1104322001655 G-X-X-G motif; other site 1104322001656 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 1104322001657 RNA binding site [nucleotide binding]; other site 1104322001658 domain interface; other site 1104322001659 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1104322001660 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1104322001661 trimer interface [polypeptide binding]; other site 1104322001662 active site 1104322001663 substrate binding site [chemical binding]; other site 1104322001664 CoA binding site [chemical binding]; other site 1104322001665 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 1104322001666 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 1104322001667 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1104322001668 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104322001669 active site 1104322001670 HIGH motif; other site 1104322001671 nucleotide binding site [chemical binding]; other site 1104322001672 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1104322001673 KMSKS motif; other site 1104322001674 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1104322001675 tRNA binding surface [nucleotide binding]; other site 1104322001676 anticodon binding site; other site 1104322001677 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 1104322001678 active site 1104322001679 metal binding site [ion binding]; metal-binding site 1104322001680 dimerization interface [polypeptide binding]; other site 1104322001681 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 1104322001682 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1104322001683 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1104322001684 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1104322001685 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1104322001686 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322001687 motif II; other site 1104322001688 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322001689 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322001690 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1104322001691 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1104322001692 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1104322001693 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1104322001694 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1104322001695 23S rRNA binding site [nucleotide binding]; other site 1104322001696 L21 binding site [polypeptide binding]; other site 1104322001697 L13 binding site [polypeptide binding]; other site 1104322001698 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104322001699 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104322001700 Walker A/P-loop; other site 1104322001701 ATP binding site [chemical binding]; other site 1104322001702 Q-loop/lid; other site 1104322001703 ABC transporter signature motif; other site 1104322001704 Walker B; other site 1104322001705 D-loop; other site 1104322001706 H-loop/switch region; other site 1104322001707 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104322001708 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104322001709 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104322001710 Walker A/P-loop; other site 1104322001711 ATP binding site [chemical binding]; other site 1104322001712 Q-loop/lid; other site 1104322001713 ABC transporter signature motif; other site 1104322001714 Walker B; other site 1104322001715 D-loop; other site 1104322001716 H-loop/switch region; other site 1104322001717 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104322001718 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104322001719 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322001720 dimer interface [polypeptide binding]; other site 1104322001721 conserved gate region; other site 1104322001722 putative PBP binding loops; other site 1104322001723 ABC-ATPase subunit interface; other site 1104322001724 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104322001725 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322001726 dimer interface [polypeptide binding]; other site 1104322001727 conserved gate region; other site 1104322001728 putative PBP binding loops; other site 1104322001729 ABC-ATPase subunit interface; other site 1104322001730 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 1104322001731 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1104322001732 peptide binding site [polypeptide binding]; other site 1104322001733 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1104322001734 Ligand Binding Site [chemical binding]; other site 1104322001735 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 1104322001736 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1104322001737 active site 1104322001738 catalytic site [active] 1104322001739 substrate binding site [chemical binding]; other site 1104322001740 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1104322001741 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1104322001742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1104322001743 aspartate aminotransferase; Provisional; Region: PRK05764 1104322001744 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1104322001745 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322001746 homodimer interface [polypeptide binding]; other site 1104322001747 catalytic residue [active] 1104322001748 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1104322001749 GIY-YIG motif/motif A; other site 1104322001750 active site 1104322001751 catalytic site [active] 1104322001752 metal binding site [ion binding]; metal-binding site 1104322001753 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1104322001754 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 1104322001755 putative dimer interface [polypeptide binding]; other site 1104322001756 putative anticodon binding site; other site 1104322001757 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1104322001758 homodimer interface [polypeptide binding]; other site 1104322001759 motif 1; other site 1104322001760 motif 2; other site 1104322001761 active site 1104322001762 motif 3; other site 1104322001763 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322001764 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322001765 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322001766 Homeodomain-like domain; Region: HTH_23; cl17451 1104322001767 putative transposase OrfB; Reviewed; Region: PHA02517 1104322001768 HTH-like domain; Region: HTH_21; pfam13276 1104322001769 Integrase core domain; Region: rve; pfam00665 1104322001770 Integrase core domain; Region: rve_2; pfam13333 1104322001771 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 1104322001772 putative metal binding site [ion binding]; other site 1104322001773 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1104322001774 Thiamine pyrophosphokinase; Region: TPK; cd07995 1104322001775 active site 1104322001776 dimerization interface [polypeptide binding]; other site 1104322001777 thiamine binding site [chemical binding]; other site 1104322001778 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104322001779 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104322001780 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1104322001781 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1104322001782 GIY-YIG motif/motif A; other site 1104322001783 putative active site [active] 1104322001784 putative metal binding site [ion binding]; other site 1104322001785 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1104322001786 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1104322001787 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1104322001788 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1104322001789 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1104322001790 putative uracil binding site [chemical binding]; other site 1104322001791 putative active site [active] 1104322001792 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1104322001793 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1104322001794 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322001795 Coenzyme A binding pocket [chemical binding]; other site 1104322001796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322001797 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1104322001798 NAD(P) binding site [chemical binding]; other site 1104322001799 active site 1104322001800 Transcriptional regulator; Region: Rrf2; pfam02082 1104322001801 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1104322001802 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1104322001803 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1104322001804 Domain of unknown function DUF21; Region: DUF21; pfam01595 1104322001805 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1104322001806 Transporter associated domain; Region: CorC_HlyC; smart01091 1104322001807 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1104322001808 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1104322001809 FeS/SAM binding site; other site 1104322001810 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1104322001811 DHH family; Region: DHH; pfam01368 1104322001812 DHHA2 domain; Region: DHHA2; pfam02833 1104322001813 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1104322001814 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1104322001815 peptidase T; Region: peptidase-T; TIGR01882 1104322001816 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1104322001817 metal binding site [ion binding]; metal-binding site 1104322001818 dimer interface [polypeptide binding]; other site 1104322001819 inner membrane transporter YjeM; Provisional; Region: PRK15238 1104322001820 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322001821 Transposase; Region: HTH_Tnp_1; pfam01527 1104322001822 putative transposase OrfB; Reviewed; Region: PHA02517 1104322001823 HTH-like domain; Region: HTH_21; pfam13276 1104322001824 Integrase core domain; Region: rve; pfam00665 1104322001825 Integrase core domain; Region: rve_3; pfam13683 1104322001826 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322001827 MULE transposase domain; Region: MULE; pfam10551 1104322001828 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1104322001829 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1104322001830 ATP binding site [chemical binding]; other site 1104322001831 putative Mg++ binding site [ion binding]; other site 1104322001832 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1104322001833 nucleotide binding region [chemical binding]; other site 1104322001834 ATP-binding site [chemical binding]; other site 1104322001835 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1104322001836 HRDC domain; Region: HRDC; pfam00570 1104322001837 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 1104322001838 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1104322001839 NAD binding site [chemical binding]; other site 1104322001840 substrate binding site [chemical binding]; other site 1104322001841 catalytic Zn binding site [ion binding]; other site 1104322001842 tetramer interface [polypeptide binding]; other site 1104322001843 structural Zn binding site [ion binding]; other site 1104322001844 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 1104322001845 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104322001846 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104322001847 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104322001848 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1104322001849 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1104322001850 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1104322001851 active site 1104322001852 DNA binding site [nucleotide binding] 1104322001853 potential frameshift: common BLAST hit: gi|125624763|ref|YP_001033246.1| neutral endopeptidase O2 1104322001854 Peptidase family M13; Region: Peptidase_M13; pfam01431 1104322001855 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1104322001856 active site 1104322001857 Zn binding site [ion binding]; other site 1104322001858 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104322001859 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1104322001860 non-specific DNA binding site [nucleotide binding]; other site 1104322001861 salt bridge; other site 1104322001862 sequence-specific DNA binding site [nucleotide binding]; other site 1104322001863 CodY GAF-like domain; Region: CodY; pfam06018 1104322001864 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1104322001865 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1104322001866 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1104322001867 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1104322001868 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1104322001869 RPB1 interaction site [polypeptide binding]; other site 1104322001870 RPB10 interaction site [polypeptide binding]; other site 1104322001871 RPB11 interaction site [polypeptide binding]; other site 1104322001872 RPB3 interaction site [polypeptide binding]; other site 1104322001873 RPB12 interaction site [polypeptide binding]; other site 1104322001874 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1104322001875 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1104322001876 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1104322001877 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1104322001878 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1104322001879 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1104322001880 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1104322001881 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1104322001882 G-loop; other site 1104322001883 DNA binding site [nucleotide binding] 1104322001884 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1104322001885 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1104322001886 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1104322001887 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322001888 dimer interface [polypeptide binding]; other site 1104322001889 conserved gate region; other site 1104322001890 putative PBP binding loops; other site 1104322001891 ABC-ATPase subunit interface; other site 1104322001892 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104322001893 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104322001894 Walker A/P-loop; other site 1104322001895 ATP binding site [chemical binding]; other site 1104322001896 Q-loop/lid; other site 1104322001897 ABC transporter signature motif; other site 1104322001898 Walker B; other site 1104322001899 D-loop; other site 1104322001900 H-loop/switch region; other site 1104322001901 Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]; Region: MecA; COG4862 1104322001902 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1104322001903 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1104322001904 Mg++ binding site [ion binding]; other site 1104322001905 putative catalytic motif [active] 1104322001906 substrate binding site [chemical binding]; other site 1104322001907 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1104322001908 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1104322001909 Walker A/P-loop; other site 1104322001910 ATP binding site [chemical binding]; other site 1104322001911 Q-loop/lid; other site 1104322001912 ABC transporter signature motif; other site 1104322001913 Walker B; other site 1104322001914 D-loop; other site 1104322001915 H-loop/switch region; other site 1104322001916 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1104322001917 FeS assembly protein SufD; Region: sufD; TIGR01981 1104322001918 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1104322001919 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1104322001920 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104322001921 catalytic residue [active] 1104322001922 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1104322001923 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1104322001924 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1104322001925 trimerization site [polypeptide binding]; other site 1104322001926 active site 1104322001927 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1104322001928 FeS assembly protein SufB; Region: sufB; TIGR01980 1104322001929 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322001930 active site 1104322001931 DNA binding site [nucleotide binding] 1104322001932 Int/Topo IB signature motif; other site 1104322001933 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 1104322001934 pentamer interface [polypeptide binding]; other site 1104322001935 dodecaamer interface [polypeptide binding]; other site 1104322001936 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1104322001937 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1104322001938 Protein of unknown function (DUF739); Region: DUF739; pfam05339 1104322001939 ORF6N domain; Region: ORF6N; pfam10543 1104322001940 ORF6C domain; Region: ORF6C; pfam10552 1104322001941 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1104322001942 RecT family; Region: RecT; cl04285 1104322001943 RecT family; Region: RecT; cl04285 1104322001944 RecT family; Region: RecT; cl04285 1104322001945 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 1104322001946 Putative replisome organiser protein C-terminus; Region: Rep_Org_C; pfam06926 1104322001947 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1104322001948 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322001949 Walker A motif; other site 1104322001950 ATP binding site [chemical binding]; other site 1104322001951 Walker B motif; other site 1104322001952 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 1104322001953 Protein of unknown function (DUF1497); Region: DUF1497; pfam07384 1104322001954 Protein of unknown function (DUF658); Region: DUF658; pfam04936 1104322001955 YopX protein; Region: YopX; pfam09643 1104322001956 Protein of unknown function (DUF1125); Region: DUF1125; pfam06563 1104322001957 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 1104322001958 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1104322001959 trimer interface [polypeptide binding]; other site 1104322001960 active site 1104322001961 Protein of unknown function (DUF722); Region: DUF722; pfam05263 1104322001962 Terminase small subunit; Region: Terminase_2; cl01513 1104322001963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 1104322001964 Terminase-like family; Region: Terminase_6; pfam03237 1104322001965 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1104322001966 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 1104322001967 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1104322001968 phage putative head morphogenesis protein, SPP1 gp7 family; Region: phageSPP1_gp7; TIGR01641 1104322001969 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 1104322001970 Phage capsid family; Region: Phage_capsid; pfam05065 1104322001971 HeH/LEM domain; Region: HeH; pfam12949 1104322001972 Phage gp6-like head-tail connector protein; Region: Phage_connect_1; pfam05135 1104322001973 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 1104322001974 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 1104322001975 phage major tail protein, TP901-1 family; Region: phgtail_TP901_1; TIGR02126 1104322001976 Phage protein; Region: DUF3647; pfam12363 1104322001977 tape measure domain; Region: tape_meas_nterm; TIGR02675 1104322001978 putative phage tail component, N-terminal domain; Region: phi3626_gp14_N; TIGR01633 1104322001979 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1104322001980 Integrase core domain; Region: rve; pfam00665 1104322001981 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322001982 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1104322001983 Walker A motif; other site 1104322001984 ATP binding site [chemical binding]; other site 1104322001985 Walker B motif; other site 1104322001986 arginine finger; other site 1104322001987 phage minor structural protein, N-terminal region; Region: put_anti_recept; TIGR01665 1104322001988 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1104322001989 Peptidase family M23; Region: Peptidase_M23; pfam01551 1104322001990 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1104322001991 holin, SPP1 family; Region: holin_SPP1; TIGR01592 1104322001992 Cpl-1 lysin (also known as Cpl-9 lysozyme / muramidase) is a bacterial cell wall endolysin encoded by the pneumococcal bacteriophage Cp-1, which cleaves the glycosidic N-acetylmuramoyl-(beta1,4)-N-acetylglucosamine bonds of the pneumococcal glycan chain; Region: GH25_Cpl1-like; cd06415 1104322001993 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1104322001994 active site 1104322001995 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104322001996 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104322001997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 1104322001998 putative transposase OrfB; Reviewed; Region: PHA02517 1104322001999 HTH-like domain; Region: HTH_21; pfam13276 1104322002000 Integrase core domain; Region: rve; pfam00665 1104322002001 Integrase core domain; Region: rve_3; pfam13683 1104322002002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322002003 Transposase; Region: HTH_Tnp_1; pfam01527 1104322002004 Putative transcription activator [Transcription]; Region: TenA; COG0819 1104322002005 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1104322002006 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1104322002007 transmembrane helices; other site 1104322002008 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1104322002009 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104322002010 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1104322002011 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322002012 Walker A/P-loop; other site 1104322002013 ATP binding site [chemical binding]; other site 1104322002014 Q-loop/lid; other site 1104322002015 ABC transporter signature motif; other site 1104322002016 Walker B; other site 1104322002017 D-loop; other site 1104322002018 H-loop/switch region; other site 1104322002019 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1104322002020 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1104322002021 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1104322002022 SLBB domain; Region: SLBB; pfam10531 1104322002023 comEA protein; Region: comE; TIGR01259 1104322002024 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1104322002025 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1104322002026 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1104322002027 Competence protein; Region: Competence; pfam03772 1104322002028 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322002029 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322002030 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1104322002031 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322002032 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322002033 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1104322002034 Predicted esterase [General function prediction only]; Region: COG0627 1104322002035 S-formylglutathione hydrolase; Region: PLN02442 1104322002036 F0F1 ATP synthase subunit C; Provisional; Region: PRK13466 1104322002037 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1104322002038 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1104322002039 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1104322002040 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1104322002041 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1104322002042 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1104322002043 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1104322002044 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1104322002045 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 1104322002046 beta subunit interaction interface [polypeptide binding]; other site 1104322002047 Walker A motif; other site 1104322002048 ATP binding site [chemical binding]; other site 1104322002049 Walker B motif; other site 1104322002050 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1104322002051 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1104322002052 core domain interface [polypeptide binding]; other site 1104322002053 delta subunit interface [polypeptide binding]; other site 1104322002054 epsilon subunit interface [polypeptide binding]; other site 1104322002055 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1104322002056 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1104322002057 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 1104322002058 alpha subunit interaction interface [polypeptide binding]; other site 1104322002059 Walker A motif; other site 1104322002060 ATP binding site [chemical binding]; other site 1104322002061 Walker B motif; other site 1104322002062 inhibitor binding site; inhibition site 1104322002063 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1104322002064 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1104322002065 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1104322002066 gamma subunit interface [polypeptide binding]; other site 1104322002067 epsilon subunit interface [polypeptide binding]; other site 1104322002068 LBP interface [polypeptide binding]; other site 1104322002069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322002070 Transposase; Region: HTH_Tnp_1; pfam01527 1104322002071 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1104322002072 Integrase core domain; Region: rve; pfam00665 1104322002073 Integrase core domain; Region: rve_3; pfam13683 1104322002074 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104322002075 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104322002076 Walker A/P-loop; other site 1104322002077 ATP binding site [chemical binding]; other site 1104322002078 Q-loop/lid; other site 1104322002079 ABC transporter signature motif; other site 1104322002080 Walker B; other site 1104322002081 D-loop; other site 1104322002082 H-loop/switch region; other site 1104322002083 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1104322002084 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104322002085 substrate binding pocket [chemical binding]; other site 1104322002086 membrane-bound complex binding site; other site 1104322002087 hinge residues; other site 1104322002088 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1104322002089 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104322002090 substrate binding pocket [chemical binding]; other site 1104322002091 membrane-bound complex binding site; other site 1104322002092 hinge residues; other site 1104322002093 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1104322002094 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322002095 dimer interface [polypeptide binding]; other site 1104322002096 conserved gate region; other site 1104322002097 putative PBP binding loops; other site 1104322002098 ABC-ATPase subunit interface; other site 1104322002099 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1104322002100 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1104322002101 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1104322002102 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1104322002103 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1104322002104 shikimate binding site; other site 1104322002105 NAD(P) binding site [chemical binding]; other site 1104322002106 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1104322002107 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1104322002108 active site 1104322002109 dimer interface [polypeptide binding]; other site 1104322002110 metal binding site [ion binding]; metal-binding site 1104322002111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1104322002112 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1104322002113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 1104322002114 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 1104322002115 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1104322002116 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322002117 motif II; other site 1104322002118 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1104322002119 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1104322002120 Tetramer interface [polypeptide binding]; other site 1104322002121 active site 1104322002122 FMN-binding site [chemical binding]; other site 1104322002123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 1104322002124 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104322002125 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322002126 Walker A/P-loop; other site 1104322002127 ATP binding site [chemical binding]; other site 1104322002128 Q-loop/lid; other site 1104322002129 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322002130 Transposase; Region: HTH_Tnp_1; pfam01527 1104322002131 putative transposase OrfB; Reviewed; Region: PHA02517 1104322002132 HTH-like domain; Region: HTH_21; pfam13276 1104322002133 Integrase core domain; Region: rve; pfam00665 1104322002134 Integrase core domain; Region: rve_3; pfam13683 1104322002135 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322002136 Transposase; Region: HTH_Tnp_1; pfam01527 1104322002137 putative transposase OrfB; Reviewed; Region: PHA02517 1104322002138 HTH-like domain; Region: HTH_21; pfam13276 1104322002139 Integrase core domain; Region: rve; pfam00665 1104322002140 Integrase core domain; Region: rve_3; pfam13683 1104322002141 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104322002142 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1104322002143 DNA binding site [nucleotide binding] 1104322002144 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104322002145 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1104322002146 ATP binding site [chemical binding]; other site 1104322002147 Mg2+ binding site [ion binding]; other site 1104322002148 G-X-G motif; other site 1104322002149 prephenate dehydrogenase; Validated; Region: PRK06545 1104322002150 prephenate dehydrogenase; Validated; Region: PRK08507 1104322002151 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 1104322002152 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1104322002153 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 1104322002154 hinge; other site 1104322002155 active site 1104322002156 shikimate kinase; Reviewed; Region: aroK; PRK00131 1104322002157 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1104322002158 ADP binding site [chemical binding]; other site 1104322002159 magnesium binding site [ion binding]; other site 1104322002160 putative shikimate binding site; other site 1104322002161 prephenate dehydratase; Provisional; Region: PRK11898 1104322002162 Prephenate dehydratase; Region: PDT; pfam00800 1104322002163 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1104322002164 putative L-Phe binding site [chemical binding]; other site 1104322002165 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1104322002166 catalytic core [active] 1104322002167 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1104322002168 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 1104322002169 AAA domain; Region: AAA_30; pfam13604 1104322002170 Family description; Region: UvrD_C_2; pfam13538 1104322002171 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1104322002172 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1104322002173 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104322002174 Zn2+ binding site [ion binding]; other site 1104322002175 Mg2+ binding site [ion binding]; other site 1104322002176 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1104322002177 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1104322002178 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1104322002179 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1104322002180 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1104322002181 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1104322002182 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1104322002183 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1104322002184 Cysteine-rich domain; Region: CCG; pfam02754 1104322002185 Cysteine-rich domain; Region: CCG; pfam02754 1104322002186 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322002187 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1104322002188 active site 1104322002189 motif I; other site 1104322002190 motif II; other site 1104322002191 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1104322002192 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1104322002193 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1104322002194 potential frameshift: common BLAST hit: gi|281492321|ref|YP_003354301.1| alpha/beta hydrolase 1104322002195 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 1104322002196 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 1104322002197 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1104322002198 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1104322002199 putative active site [active] 1104322002200 Competence protein CoiA-like family; Region: CoiA; cl11541 1104322002201 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1104322002202 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1104322002203 active site 1104322002204 Zn binding site [ion binding]; other site 1104322002205 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1104322002206 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322002207 S-adenosylmethionine binding site [chemical binding]; other site 1104322002208 foldase protein PrsA; Reviewed; Region: PRK12450 1104322002209 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1104322002210 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1104322002211 motif 1; other site 1104322002212 active site 1104322002213 motif 2; other site 1104322002214 motif 3; other site 1104322002215 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1104322002216 DHHA1 domain; Region: DHHA1; pfam02272 1104322002217 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1104322002218 active site 1104322002219 catalytic triad [active] 1104322002220 oxyanion hole [active] 1104322002221 potential frameshift: common BLAST hit: gi|116512577|ref|YP_811484.1| nitroreductase 1104322002222 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1104322002223 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1104322002224 FMN binding site [chemical binding]; other site 1104322002225 Predicted transcriptional regulators [Transcription]; Region: COG1733 1104322002226 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1104322002227 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 1104322002228 SmpB-tmRNA interface; other site 1104322002229 PBP superfamily domain; Region: PBP_like_2; cl17296 1104322002230 PBP superfamily domain; Region: PBP_like_2; cl17296 1104322002231 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1104322002232 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322002233 dimer interface [polypeptide binding]; other site 1104322002234 conserved gate region; other site 1104322002235 putative PBP binding loops; other site 1104322002236 ABC-ATPase subunit interface; other site 1104322002237 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1104322002238 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322002239 dimer interface [polypeptide binding]; other site 1104322002240 conserved gate region; other site 1104322002241 putative PBP binding loops; other site 1104322002242 ABC-ATPase subunit interface; other site 1104322002243 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 1104322002244 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1104322002245 Walker A/P-loop; other site 1104322002246 ATP binding site [chemical binding]; other site 1104322002247 Q-loop/lid; other site 1104322002248 ABC transporter signature motif; other site 1104322002249 Walker B; other site 1104322002250 D-loop; other site 1104322002251 H-loop/switch region; other site 1104322002252 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 1104322002253 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1104322002254 Walker A/P-loop; other site 1104322002255 ATP binding site [chemical binding]; other site 1104322002256 Q-loop/lid; other site 1104322002257 ABC transporter signature motif; other site 1104322002258 Walker B; other site 1104322002259 D-loop; other site 1104322002260 H-loop/switch region; other site 1104322002261 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1104322002262 PhoU domain; Region: PhoU; pfam01895 1104322002263 PhoU domain; Region: PhoU; pfam01895 1104322002264 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1104322002265 catalytic core [active] 1104322002266 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1104322002267 putative dimer interface [polypeptide binding]; other site 1104322002268 catalytic triad [active] 1104322002269 putative transposase OrfB; Reviewed; Region: PHA02517 1104322002270 HTH-like domain; Region: HTH_21; pfam13276 1104322002271 Integrase core domain; Region: rve; pfam00665 1104322002272 Integrase core domain; Region: rve_3; pfam13683 1104322002273 seryl-tRNA synthetase; Provisional; Region: PRK05431 1104322002274 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1104322002275 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1104322002276 dimer interface [polypeptide binding]; other site 1104322002277 active site 1104322002278 motif 1; other site 1104322002279 motif 2; other site 1104322002280 motif 3; other site 1104322002281 Domain of unknown function (DUF956); Region: DUF956; cl01917 1104322002282 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104322002283 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104322002284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4687 1104322002285 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1104322002286 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1104322002287 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1104322002288 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1104322002289 active pocket/dimerization site; other site 1104322002290 active site 1104322002291 phosphorylation site [posttranslational modification] 1104322002292 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1104322002293 active site 1104322002294 phosphorylation site [posttranslational modification] 1104322002295 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1104322002296 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 1104322002297 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104322002298 cytidylate kinase; Provisional; Region: cmk; PRK00023 1104322002299 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 1104322002300 CMP-binding site; other site 1104322002301 The sites determining sugar specificity; other site 1104322002302 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1104322002303 Isochorismatase family; Region: Isochorismatase; pfam00857 1104322002304 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1104322002305 catalytic triad [active] 1104322002306 dimer interface [polypeptide binding]; other site 1104322002307 conserved cis-peptide bond; other site 1104322002308 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322002309 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322002310 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104322002311 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322002312 dimer interface [polypeptide binding]; other site 1104322002313 conserved gate region; other site 1104322002314 putative PBP binding loops; other site 1104322002315 ABC-ATPase subunit interface; other site 1104322002316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322002317 dimer interface [polypeptide binding]; other site 1104322002318 conserved gate region; other site 1104322002319 putative PBP binding loops; other site 1104322002320 ABC-ATPase subunit interface; other site 1104322002321 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1104322002322 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104322002323 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1104322002324 homodimer interface [polypeptide binding]; other site 1104322002325 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1104322002326 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1104322002327 active site 1104322002328 homodimer interface [polypeptide binding]; other site 1104322002329 catalytic site [active] 1104322002330 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1104322002331 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1104322002332 Ca binding site [ion binding]; other site 1104322002333 active site 1104322002334 catalytic site [active] 1104322002335 maltose O-acetyltransferase; Provisional; Region: PRK10092 1104322002336 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1104322002337 active site 1104322002338 substrate binding site [chemical binding]; other site 1104322002339 trimer interface [polypeptide binding]; other site 1104322002340 CoA binding site [chemical binding]; other site 1104322002341 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1104322002342 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 1104322002343 Ca binding site [ion binding]; other site 1104322002344 active site 1104322002345 catalytic site [active] 1104322002346 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1104322002347 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1104322002348 Ca binding site [ion binding]; other site 1104322002349 active site 1104322002350 catalytic site [active] 1104322002351 maltose phosphorylase; Provisional; Region: PRK13807 1104322002352 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1104322002353 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1104322002354 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1104322002355 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104322002356 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104322002357 DNA binding site [nucleotide binding] 1104322002358 domain linker motif; other site 1104322002359 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 1104322002360 putative dimerization interface [polypeptide binding]; other site 1104322002361 putative ligand binding site [chemical binding]; other site 1104322002362 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104322002363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104322002364 active site 1104322002365 phosphorylation site [posttranslational modification] 1104322002366 intermolecular recognition site; other site 1104322002367 dimerization interface [polypeptide binding]; other site 1104322002368 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1104322002369 DNA binding site [nucleotide binding] 1104322002370 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104322002371 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1104322002372 dimer interface [polypeptide binding]; other site 1104322002373 phosphorylation site [posttranslational modification] 1104322002374 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1104322002375 ATP binding site [chemical binding]; other site 1104322002376 Mg2+ binding site [ion binding]; other site 1104322002377 G-X-G motif; other site 1104322002378 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 1104322002379 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1104322002380 TPP-binding site; other site 1104322002381 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1104322002382 PYR/PP interface [polypeptide binding]; other site 1104322002383 dimer interface [polypeptide binding]; other site 1104322002384 TPP binding site [chemical binding]; other site 1104322002385 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104322002386 Haemolytic domain; Region: Haemolytic; cl00506 1104322002387 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1104322002388 beta-galactosidase; Region: BGL; TIGR03356 1104322002389 Predicted membrane protein [Function unknown]; Region: COG1511 1104322002390 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1104322002391 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1104322002392 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1104322002393 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322002394 S-adenosylmethionine binding site [chemical binding]; other site 1104322002395 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322002396 non-specific DNA binding site [nucleotide binding]; other site 1104322002397 salt bridge; other site 1104322002398 sequence-specific DNA binding site [nucleotide binding]; other site 1104322002399 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1104322002400 Lactococcin-like family; Region: Lactococcin; pfam04369 1104322002401 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1104322002402 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 1104322002403 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1104322002404 Cl- selectivity filter; other site 1104322002405 Cl- binding residues [ion binding]; other site 1104322002406 pore gating glutamate residue; other site 1104322002407 dimer interface [polypeptide binding]; other site 1104322002408 H+/Cl- coupling transport residue; other site 1104322002409 TrkA-C domain; Region: TrkA_C; pfam02080 1104322002410 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional; Region: PRK13387 1104322002411 UbiA prenyltransferase family; Region: UbiA; pfam01040 1104322002412 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; smart01095 1104322002413 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 1104322002414 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104322002415 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104322002416 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1104322002417 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1104322002418 ATP-binding site [chemical binding]; other site 1104322002419 Sugar specificity; other site 1104322002420 Pyrimidine base specificity; other site 1104322002421 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1104322002422 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1104322002423 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322002424 active site 1104322002425 motif I; other site 1104322002426 motif II; other site 1104322002427 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1104322002428 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1104322002429 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1104322002430 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1104322002431 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1104322002432 cell division protein GpsB; Provisional; Region: PRK14127 1104322002433 DivIVA domain; Region: DivI1A_domain; TIGR03544 1104322002434 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1104322002435 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1104322002436 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1104322002437 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 1104322002438 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1104322002439 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1104322002440 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1104322002441 active site 1104322002442 catabolite control protein A; Region: ccpA; TIGR01481 1104322002443 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104322002444 DNA binding site [nucleotide binding] 1104322002445 domain linker motif; other site 1104322002446 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 1104322002447 dimerization interface [polypeptide binding]; other site 1104322002448 effector binding site; other site 1104322002449 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1104322002450 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104322002451 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104322002452 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1104322002453 Colicin V production protein; Region: Colicin_V; pfam02674 1104322002454 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1104322002455 MutS domain III; Region: MutS_III; pfam05192 1104322002456 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1104322002457 Walker A/P-loop; other site 1104322002458 ATP binding site [chemical binding]; other site 1104322002459 Q-loop/lid; other site 1104322002460 ABC transporter signature motif; other site 1104322002461 Walker B; other site 1104322002462 D-loop; other site 1104322002463 H-loop/switch region; other site 1104322002464 Smr domain; Region: Smr; pfam01713 1104322002465 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1104322002466 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1104322002467 catalytic residues [active] 1104322002468 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1104322002469 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1104322002470 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1104322002471 active site 1104322002472 catalytic residue [active] 1104322002473 dimer interface [polypeptide binding]; other site 1104322002474 adenylosuccinate lyase; Provisional; Region: PRK07492 1104322002475 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1104322002476 tetramer interface [polypeptide binding]; other site 1104322002477 active site 1104322002478 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 1104322002479 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104322002480 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104322002481 DNA binding site [nucleotide binding] 1104322002482 domain linker motif; other site 1104322002483 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1104322002484 dimerization interface [polypeptide binding]; other site 1104322002485 ligand binding site [chemical binding]; other site 1104322002486 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104322002487 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1104322002488 substrate binding site [chemical binding]; other site 1104322002489 dimer interface [polypeptide binding]; other site 1104322002490 ATP binding site [chemical binding]; other site 1104322002491 D-ribose pyranase; Provisional; Region: PRK11797 1104322002492 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1104322002493 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322002494 Walker A/P-loop; other site 1104322002495 ATP binding site [chemical binding]; other site 1104322002496 Q-loop/lid; other site 1104322002497 ABC transporter signature motif; other site 1104322002498 Walker B; other site 1104322002499 D-loop; other site 1104322002500 H-loop/switch region; other site 1104322002501 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104322002502 potential frameshift: common BLAST hit: gi|125623639|ref|YP_001032122.1| ribose transport system permease RbsC 1104322002503 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104322002504 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1104322002505 TM-ABC transporter signature motif; other site 1104322002506 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1104322002507 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1104322002508 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1104322002509 ligand binding site [chemical binding]; other site 1104322002510 dimerization interface [polypeptide binding]; other site 1104322002511 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322002512 MULE transposase domain; Region: MULE; pfam10551 1104322002513 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322002514 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322002515 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322002516 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1104322002517 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1104322002518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322002519 putative substrate translocation pore; other site 1104322002520 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1104322002521 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104322002522 DNA-binding site [nucleotide binding]; DNA binding site 1104322002523 FCD domain; Region: FCD; pfam07729 1104322002524 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1104322002525 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1104322002526 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1104322002527 mannonate dehydratase; Provisional; Region: PRK03906 1104322002528 mannonate dehydratase; Region: uxuA; TIGR00695 1104322002529 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1104322002530 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322002531 putative substrate translocation pore; other site 1104322002532 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1104322002533 active site 1104322002534 catalytic residues [active] 1104322002535 potential frameshift: common BLAST hit: gi|116512444|ref|YP_809678.1| glucuronate isomerase 1104322002536 Glucuronate isomerase; Region: UxaC; cl00829 1104322002537 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1104322002538 Glucuronate isomerase; Region: UxaC; cl00829 1104322002539 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1104322002540 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1104322002541 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1104322002542 substrate binding site [chemical binding]; other site 1104322002543 ATP binding site [chemical binding]; other site 1104322002544 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1104322002545 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1104322002546 active site 1104322002547 intersubunit interface [polypeptide binding]; other site 1104322002548 catalytic residue [active] 1104322002549 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1104322002550 PRD domain; Region: PRD; pfam00874 1104322002551 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1104322002552 active site 1104322002553 P-loop; other site 1104322002554 phosphorylation site [posttranslational modification] 1104322002555 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1104322002556 active site 1104322002557 phosphorylation site [posttranslational modification] 1104322002558 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1104322002559 active site 1104322002560 P-loop; other site 1104322002561 phosphorylation site [posttranslational modification] 1104322002562 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1104322002563 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1104322002564 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1104322002565 TPP-binding site [chemical binding]; other site 1104322002566 dimer interface [polypeptide binding]; other site 1104322002567 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1104322002568 PYR/PP interface [polypeptide binding]; other site 1104322002569 dimer interface [polypeptide binding]; other site 1104322002570 TPP binding site [chemical binding]; other site 1104322002571 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104322002572 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1104322002573 amphipathic channel; other site 1104322002574 Asn-Pro-Ala signature motifs; other site 1104322002575 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1104322002576 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1104322002577 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1104322002578 nudix motif; other site 1104322002579 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1104322002580 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1104322002581 dimer interface [polypeptide binding]; other site 1104322002582 active site 1104322002583 catalytic residue [active] 1104322002584 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1104322002585 MgtC family; Region: MgtC; pfam02308 1104322002586 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1104322002587 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1104322002588 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1104322002589 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1104322002590 signal recognition particle protein; Provisional; Region: PRK10867 1104322002591 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1104322002592 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1104322002593 P loop; other site 1104322002594 GTP binding site [chemical binding]; other site 1104322002595 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1104322002596 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 1104322002597 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104322002598 Coenzyme A binding pocket [chemical binding]; other site 1104322002599 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1104322002600 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1104322002601 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1104322002602 Predicted membrane protein [Function unknown]; Region: COG4392 1104322002603 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322002604 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322002605 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 1104322002606 Uncharacterized conserved protein [Function unknown]; Region: COG2461 1104322002607 Family of unknown function (DUF438); Region: DUF438; pfam04282 1104322002608 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1104322002609 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 1104322002610 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 1104322002611 nucleotide binding site [chemical binding]; other site 1104322002612 homotetrameric interface [polypeptide binding]; other site 1104322002613 putative phosphate binding site [ion binding]; other site 1104322002614 putative allosteric binding site; other site 1104322002615 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1104322002616 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1104322002617 putative catalytic cysteine [active] 1104322002618 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1104322002619 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1104322002620 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104322002621 dimerization interface [polypeptide binding]; other site 1104322002622 putative DNA binding site [nucleotide binding]; other site 1104322002623 putative Zn2+ binding site [ion binding]; other site 1104322002624 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 1104322002625 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1104322002626 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322002627 active site 1104322002628 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1104322002629 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1104322002630 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1104322002631 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1104322002632 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1104322002633 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1104322002634 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1104322002635 catalytic site [active] 1104322002636 subunit interface [polypeptide binding]; other site 1104322002637 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322002638 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322002639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322002640 Homeodomain-like domain; Region: HTH_23; cl17451 1104322002641 putative transposase OrfB; Reviewed; Region: PHA02517 1104322002642 HTH-like domain; Region: HTH_21; pfam13276 1104322002643 Integrase core domain; Region: rve; pfam00665 1104322002644 Integrase core domain; Region: rve_2; pfam13333 1104322002645 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322002646 Transposase; Region: HTH_Tnp_1; pfam01527 1104322002647 putative transposase OrfB; Reviewed; Region: PHA02517 1104322002648 HTH-like domain; Region: HTH_21; pfam13276 1104322002649 Integrase core domain; Region: rve; pfam00665 1104322002650 Integrase core domain; Region: rve_3; pfam13683 1104322002651 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1104322002652 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1104322002653 phosphodiesterase YaeI; Provisional; Region: PRK11340 1104322002654 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1104322002655 putative active site [active] 1104322002656 putative metal binding site [ion binding]; other site 1104322002657 potential frameshift: common BLAST hit: gi|116512407|ref|YP_809623.1| surface antigen 1104322002658 CHAP domain; Region: CHAP; pfam05257 1104322002659 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1104322002660 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1104322002661 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104322002662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104322002663 active site 1104322002664 phosphorylation site [posttranslational modification] 1104322002665 intermolecular recognition site; other site 1104322002666 dimerization interface [polypeptide binding]; other site 1104322002667 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1104322002668 DNA binding site [nucleotide binding] 1104322002669 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104322002670 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1104322002671 dimerization interface [polypeptide binding]; other site 1104322002672 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1104322002673 dimer interface [polypeptide binding]; other site 1104322002674 phosphorylation site [posttranslational modification] 1104322002675 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1104322002676 ATP binding site [chemical binding]; other site 1104322002677 Mg2+ binding site [ion binding]; other site 1104322002678 G-X-G motif; other site 1104322002679 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1104322002680 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1104322002681 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1104322002682 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1104322002683 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1104322002684 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104322002685 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104322002686 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1104322002687 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 1104322002688 homodimer interface [polypeptide binding]; other site 1104322002689 active site 1104322002690 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1104322002691 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1104322002692 Cell division protein FtsQ; Region: FtsQ; pfam03799 1104322002693 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1104322002694 GTP1/OBG; Region: GTP1_OBG; pfam01018 1104322002695 Obg GTPase; Region: Obg; cd01898 1104322002696 G1 box; other site 1104322002697 GTP/Mg2+ binding site [chemical binding]; other site 1104322002698 Switch I region; other site 1104322002699 G2 box; other site 1104322002700 G3 box; other site 1104322002701 Switch II region; other site 1104322002702 G4 box; other site 1104322002703 G5 box; other site 1104322002704 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1104322002705 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1104322002706 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1104322002707 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1104322002708 potential frameshift: common BLAST hit: gi|116512389|ref|YP_809605.1| cell surface protein 1104322002709 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1104322002710 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1104322002711 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322002712 MULE transposase domain; Region: MULE; pfam10551 1104322002713 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322002714 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1104322002715 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1104322002716 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1104322002717 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1104322002718 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104322002719 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1104322002720 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1104322002721 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1104322002722 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1104322002723 active site 1104322002724 trimer interface [polypeptide binding]; other site 1104322002725 allosteric site; other site 1104322002726 active site lid [active] 1104322002727 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1104322002728 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1104322002729 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1104322002730 dimer interface [polypeptide binding]; other site 1104322002731 active site 1104322002732 putative acyltransferase; Provisional; Region: PRK05790 1104322002733 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1104322002734 dimer interface [polypeptide binding]; other site 1104322002735 active site 1104322002736 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1104322002737 homodimer interface [polypeptide binding]; other site 1104322002738 catalytic residues [active] 1104322002739 NAD binding site [chemical binding]; other site 1104322002740 substrate binding pocket [chemical binding]; other site 1104322002741 flexible flap; other site 1104322002742 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 1104322002743 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1104322002744 KH domain; Region: KH_4; pfam13083 1104322002745 Ferrochelatase; Region: Ferrochelatase; pfam00762 1104322002746 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1104322002747 C-terminal domain interface [polypeptide binding]; other site 1104322002748 active site 1104322002749 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1104322002750 active site 1104322002751 N-terminal domain interface [polypeptide binding]; other site 1104322002752 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1104322002753 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104322002754 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1104322002755 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1104322002756 RimM N-terminal domain; Region: RimM; pfam01782 1104322002757 PRC-barrel domain; Region: PRC; pfam05239 1104322002758 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1104322002759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 1104322002760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 1104322002761 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1104322002762 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1104322002763 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1104322002764 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1104322002765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322002766 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1104322002767 Coenzyme A binding pocket [chemical binding]; other site 1104322002768 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1104322002769 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1104322002770 active site 1104322002771 NTP binding site [chemical binding]; other site 1104322002772 metal binding triad [ion binding]; metal-binding site 1104322002773 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1104322002774 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1104322002775 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 1104322002776 potential frameshift: common BLAST hit: gi|116512353|ref|YP_809569.1| glycerol dehydrogenase 1104322002777 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1104322002778 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 1104322002779 putative active site [active] 1104322002780 metal binding site [ion binding]; metal-binding site 1104322002781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104322002782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104322002783 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1104322002784 dimerization interface [polypeptide binding]; other site 1104322002785 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104322002786 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322002787 Walker A/P-loop; other site 1104322002788 ATP binding site [chemical binding]; other site 1104322002789 Q-loop/lid; other site 1104322002790 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322002791 ABC transporter signature motif; other site 1104322002792 Walker B; other site 1104322002793 D-loop; other site 1104322002794 ABC transporter; Region: ABC_tran_2; pfam12848 1104322002795 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322002796 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1104322002797 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1104322002798 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1104322002799 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1104322002800 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1104322002801 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1A_like; cd04741 1104322002802 active site 1104322002803 FMN binding site [chemical binding]; other site 1104322002804 substrate binding site [chemical binding]; other site 1104322002805 catalytic residues [active] 1104322002806 homodimer interface [polypeptide binding]; other site 1104322002807 Predicted membrane protein [Function unknown]; Region: COG4905 1104322002808 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1104322002809 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1104322002810 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 1104322002811 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1104322002812 catalytic Zn binding site [ion binding]; other site 1104322002813 NAD(P) binding site [chemical binding]; other site 1104322002814 structural Zn binding site [ion binding]; other site 1104322002815 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104322002816 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104322002817 DNA binding site [nucleotide binding] 1104322002818 domain linker motif; other site 1104322002819 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1104322002820 ligand binding site [chemical binding]; other site 1104322002821 dimerization interface [polypeptide binding]; other site 1104322002822 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1104322002823 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 1104322002824 substrate binding site [chemical binding]; other site 1104322002825 hexamer interface [polypeptide binding]; other site 1104322002826 metal binding site [ion binding]; metal-binding site 1104322002827 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1104322002828 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1104322002829 beta-galactosidase; Region: BGL; TIGR03356 1104322002830 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1104322002831 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104322002832 nucleotide binding site [chemical binding]; other site 1104322002833 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104322002834 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104322002835 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104322002836 potential frameshift: common BLAST hit: gi|125623802|ref|YP_001032285.1| PTS system transporter subunit IIC 1104322002837 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1104322002838 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 1104322002839 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1104322002840 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1104322002841 dimerization interface [polypeptide binding]; other site 1104322002842 active site 1104322002843 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322002844 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322002845 Uncharacterized conserved protein [Function unknown]; Region: COG4717 1104322002846 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104322002847 MarR family; Region: MarR_2; pfam12802 1104322002848 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322002849 putative transporter; Provisional; Region: PRK10504 1104322002850 putative substrate translocation pore; other site 1104322002851 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322002852 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1104322002853 classical (c) SDRs; Region: SDR_c; cd05233 1104322002854 NAD(P) binding site [chemical binding]; other site 1104322002855 active site 1104322002856 Uncharacterized protein conserved in bacteria (DUF2255); Region: DUF2255; cl01788 1104322002857 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1104322002858 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1104322002859 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1104322002860 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1104322002861 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1104322002862 ATP binding site [chemical binding]; other site 1104322002863 active site 1104322002864 substrate binding site [chemical binding]; other site 1104322002865 Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component [Nucleotide transport and metabolism]; Region: PurS; COG1828 1104322002866 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1104322002867 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1104322002868 putative active site [active] 1104322002869 catalytic triad [active] 1104322002870 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1104322002871 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 1104322002872 dimerization interface [polypeptide binding]; other site 1104322002873 ATP binding site [chemical binding]; other site 1104322002874 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1104322002875 dimerization interface [polypeptide binding]; other site 1104322002876 ATP binding site [chemical binding]; other site 1104322002877 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1104322002878 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 1104322002879 active site 1104322002880 tetramer interface [polypeptide binding]; other site 1104322002881 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322002882 active site 1104322002883 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1104322002884 Clp amino terminal domain; Region: Clp_N; pfam02861 1104322002885 Clp amino terminal domain; Region: Clp_N; pfam02861 1104322002886 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322002887 Walker A motif; other site 1104322002888 ATP binding site [chemical binding]; other site 1104322002889 Walker B motif; other site 1104322002890 arginine finger; other site 1104322002891 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322002892 Walker A motif; other site 1104322002893 ATP binding site [chemical binding]; other site 1104322002894 Walker B motif; other site 1104322002895 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1104322002896 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1104322002897 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 1104322002898 dimerization interface [polypeptide binding]; other site 1104322002899 putative ATP binding site [chemical binding]; other site 1104322002900 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1104322002901 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1104322002902 active site 1104322002903 substrate binding site [chemical binding]; other site 1104322002904 cosubstrate binding site; other site 1104322002905 catalytic site [active] 1104322002906 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104322002907 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322002908 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1104322002909 Walker A/P-loop; other site 1104322002910 ATP binding site [chemical binding]; other site 1104322002911 Q-loop/lid; other site 1104322002912 ABC transporter signature motif; other site 1104322002913 Walker B; other site 1104322002914 D-loop; other site 1104322002915 H-loop/switch region; other site 1104322002916 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104322002917 potential frameshift: common BLAST hit: gi|125623829|ref|YP_001032312.1| nucleoside-diphosphate-sugar epimerase 1104322002918 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104322002919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322002920 NAD(P) binding site [chemical binding]; other site 1104322002921 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1104322002922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322002923 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322002924 Integrase core domain; Region: rve; pfam00665 1104322002925 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322002926 active site 1104322002927 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1104322002928 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 1104322002929 purine monophosphate binding site [chemical binding]; other site 1104322002930 dimer interface [polypeptide binding]; other site 1104322002931 putative catalytic residues [active] 1104322002932 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1104322002933 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1104322002934 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 1104322002935 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322002936 motif II; other site 1104322002937 potential frameshift: common BLAST hit: gi|116512310|ref|YP_809526.1| major facilitator superfamily permease 1104322002938 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322002939 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322002940 putative substrate translocation pore; other site 1104322002941 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104322002942 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104322002943 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1104322002944 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1104322002945 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1104322002946 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1104322002947 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1104322002948 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1104322002949 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1104322002950 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1104322002951 ATP-grasp domain; Region: ATP-grasp; pfam02222 1104322002952 potential frameshift: common BLAST hit: gi|116512304|ref|YP_809520.1| AraC family transcriptional regulator 1104322002953 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104322002954 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104322002955 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104322002956 Cupin domain; Region: Cupin_2; cl17218 1104322002957 xylose isomerase; Provisional; Region: PRK05474 1104322002958 xylose isomerase; Region: xylose_isom_A; TIGR02630 1104322002959 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 1104322002960 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1104322002961 N- and C-terminal domain interface [polypeptide binding]; other site 1104322002962 D-xylulose kinase; Region: XylB; TIGR01312 1104322002963 active site 1104322002964 MgATP binding site [chemical binding]; other site 1104322002965 catalytic site [active] 1104322002966 metal binding site [ion binding]; metal-binding site 1104322002967 xylulose binding site [chemical binding]; other site 1104322002968 homodimer interface [polypeptide binding]; other site 1104322002969 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1104322002970 active site 1104322002971 catalytic residues [active] 1104322002972 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1104322002973 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1104322002974 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1104322002975 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1104322002976 Integrase core domain; Region: rve; pfam00665 1104322002977 Integrase core domain; Region: rve_3; pfam13683 1104322002978 Transposase; Region: HTH_Tnp_1; pfam01527 1104322002979 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322002980 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322002981 active site 1104322002982 Int/Topo IB signature motif; other site 1104322002983 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 1104322002984 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1104322002985 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1104322002986 glutamine binding [chemical binding]; other site 1104322002987 catalytic triad [active] 1104322002988 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1104322002989 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1104322002990 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 1104322002991 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1104322002992 substrate-cofactor binding pocket; other site 1104322002993 homodimer interface [polypeptide binding]; other site 1104322002994 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1104322002995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322002996 catalytic residue [active] 1104322002997 Plasmid replication protein; Region: Rep_2; pfam01719 1104322002998 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1104322002999 Coenzyme A binding pocket [chemical binding]; other site 1104322003000 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322003001 DNA binding site [nucleotide binding] 1104322003002 active site 1104322003003 Int/Topo IB signature motif; other site 1104322003004 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 1104322003005 nudix motif; other site 1104322003006 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003007 Transposase; Region: HTH_Tnp_1; pfam01527 1104322003008 putative transposase OrfB; Reviewed; Region: PHA02517 1104322003009 HTH-like domain; Region: HTH_21; pfam13276 1104322003010 Integrase core domain; Region: rve; pfam00665 1104322003011 Integrase core domain; Region: rve_3; pfam13683 1104322003012 potential frameshift: common BLAST hit: gi|125623567|ref|YP_001032050.1| DNA-invertase/resolvase 1104322003013 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1104322003014 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1104322003015 catalytic nucleophile [active] 1104322003016 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1104322003017 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1104322003018 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 1104322003019 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1104322003020 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1104322003021 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104322003022 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104322003023 Walker A/P-loop; other site 1104322003024 ATP binding site [chemical binding]; other site 1104322003025 Q-loop/lid; other site 1104322003026 ABC transporter signature motif; other site 1104322003027 Walker B; other site 1104322003028 D-loop; other site 1104322003029 H-loop/switch region; other site 1104322003030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003031 Transposase; Region: HTH_Tnp_1; pfam01527 1104322003032 potential frameshift: common BLAST hit: gi|116628154|ref|YP_820773.1| transposase 1104322003033 HTH-like domain; Region: HTH_21; pfam13276 1104322003034 Integrase core domain; Region: rve; pfam00665 1104322003035 Integrase core domain; Region: rve_3; pfam13683 1104322003036 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003037 Transposase; Region: HTH_Tnp_1; cl17663 1104322003038 putative transposase OrfB; Reviewed; Region: PHA02517 1104322003039 HTH-like domain; Region: HTH_21; pfam13276 1104322003040 Integrase core domain; Region: rve; pfam00665 1104322003041 Integrase core domain; Region: rve_3; pfam13683 1104322003042 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1104322003043 active site pocket [active] 1104322003044 oxyanion hole [active] 1104322003045 catalytic triad [active] 1104322003046 active site nucleophile [active] 1104322003047 Predicted integral membrane protein [Function unknown]; Region: COG5578 1104322003048 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1104322003049 beta-galactosidase; Region: BGL; TIGR03356 1104322003050 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1104322003051 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104322003052 nucleotide binding site [chemical binding]; other site 1104322003053 butyrate kinase; Provisional; Region: PRK03011 1104322003054 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1104322003055 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104322003056 nucleotide binding site [chemical binding]; other site 1104322003057 GMP synthase; Reviewed; Region: guaA; PRK00074 1104322003058 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1104322003059 AMP/PPi binding site [chemical binding]; other site 1104322003060 candidate oxyanion hole; other site 1104322003061 catalytic triad [active] 1104322003062 potential glutamine specificity residues [chemical binding]; other site 1104322003063 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 1104322003064 ATP Binding subdomain [chemical binding]; other site 1104322003065 Dimerization subdomain; other site 1104322003066 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1104322003067 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322003068 dimer interface [polypeptide binding]; other site 1104322003069 conserved gate region; other site 1104322003070 ABC-ATPase subunit interface; other site 1104322003071 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104322003072 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322003073 dimer interface [polypeptide binding]; other site 1104322003074 conserved gate region; other site 1104322003075 ABC-ATPase subunit interface; other site 1104322003076 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1104322003077 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104322003078 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 1104322003079 potential frameshift: common BLAST hit: gi|281492040|ref|YP_003354020.1| MatE family Na+ driven multidrug efflux pump 1104322003080 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1104322003081 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1104322003082 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1104322003083 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1104322003084 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1104322003085 oligomer interface [polypeptide binding]; other site 1104322003086 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1104322003087 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322003088 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322003089 MULE transposase domain; Region: MULE; pfam10551 1104322003090 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1104322003091 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1104322003092 Cl binding site [ion binding]; other site 1104322003093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003094 Transposase; Region: HTH_Tnp_1; pfam01527 1104322003095 putative transposase OrfB; Reviewed; Region: PHA02517 1104322003096 HTH-like domain; Region: HTH_21; pfam13276 1104322003097 Integrase core domain; Region: rve; pfam00665 1104322003098 Integrase core domain; Region: rve_3; pfam13683 1104322003099 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104322003100 MarR family; Region: MarR; pfam01047 1104322003101 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 1104322003102 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1104322003103 TPP-binding site; other site 1104322003104 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1104322003105 PYR/PP interface [polypeptide binding]; other site 1104322003106 dimer interface [polypeptide binding]; other site 1104322003107 TPP binding site [chemical binding]; other site 1104322003108 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1104322003109 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322003110 MULE transposase domain; Region: MULE; pfam10551 1104322003111 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003112 Transposase; Region: HTH_Tnp_1; pfam01527 1104322003113 putative transposase OrfB; Reviewed; Region: PHA02517 1104322003114 HTH-like domain; Region: HTH_21; pfam13276 1104322003115 Integrase core domain; Region: rve; pfam00665 1104322003116 Integrase core domain; Region: rve_3; pfam13683 1104322003117 putative transposase OrfB; Reviewed; Region: PHA02517 1104322003118 HTH-like domain; Region: HTH_21; pfam13276 1104322003119 Integrase core domain; Region: rve; pfam00665 1104322003120 Integrase core domain; Region: rve_2; pfam13333 1104322003121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003122 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322003123 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1104322003124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322003125 NAD(P) binding site [chemical binding]; other site 1104322003126 active site 1104322003127 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1104322003128 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1104322003129 putative dimer interface [polypeptide binding]; other site 1104322003130 potential frameshift: common BLAST hit: gi|116512278|ref|YP_809494.1| DMT family permease 1104322003131 EamA-like transporter family; Region: EamA; cl17759 1104322003132 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322003133 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322003134 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1104322003135 metal binding site 2 [ion binding]; metal-binding site 1104322003136 putative DNA binding helix; other site 1104322003137 metal binding site 1 [ion binding]; metal-binding site 1104322003138 dimer interface [polypeptide binding]; other site 1104322003139 structural Zn2+ binding site [ion binding]; other site 1104322003140 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1104322003141 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1104322003142 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1104322003143 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104322003144 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104322003145 putative DNA binding site [nucleotide binding]; other site 1104322003146 putative Zn2+ binding site [ion binding]; other site 1104322003147 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1104322003148 dimer interface [polypeptide binding]; other site 1104322003149 FMN binding site [chemical binding]; other site 1104322003150 Predicted membrane protein [Function unknown]; Region: COG3759 1104322003151 potential frameshift: common BLAST hit: gi|116512272|ref|YP_809488.1| anthranilate synthase component I 1104322003152 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1104322003153 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1104322003154 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1104322003155 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1104322003156 glutamine binding [chemical binding]; other site 1104322003157 catalytic triad [active] 1104322003158 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1104322003159 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1104322003160 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1104322003161 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1104322003162 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1104322003163 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 1104322003164 active site 1104322003165 ribulose/triose binding site [chemical binding]; other site 1104322003166 phosphate binding site [ion binding]; other site 1104322003167 substrate (anthranilate) binding pocket [chemical binding]; other site 1104322003168 product (indole) binding pocket [chemical binding]; other site 1104322003169 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1104322003170 active site 1104322003171 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1104322003172 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1104322003173 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 1104322003174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322003175 catalytic residue [active] 1104322003176 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 1104322003177 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1104322003178 substrate binding site [chemical binding]; other site 1104322003179 active site 1104322003180 catalytic residues [active] 1104322003181 heterodimer interface [polypeptide binding]; other site 1104322003182 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1104322003183 CAT RNA binding domain; Region: CAT_RBD; smart01061 1104322003184 PRD domain; Region: PRD; pfam00874 1104322003185 PRD domain; Region: PRD; pfam00874 1104322003186 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1104322003187 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104322003188 active site turn [active] 1104322003189 phosphorylation site [posttranslational modification] 1104322003190 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104322003191 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1104322003192 HPr interaction site; other site 1104322003193 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104322003194 active site 1104322003195 phosphorylation site [posttranslational modification] 1104322003196 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1104322003197 beta-galactosidase; Region: BGL; TIGR03356 1104322003198 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104322003199 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104322003200 DNA-binding site [nucleotide binding]; DNA binding site 1104322003201 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 1104322003202 TrkA-C domain; Region: TrkA_C; pfam02080 1104322003203 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1104322003204 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1104322003205 Walker A/P-loop; other site 1104322003206 ATP binding site [chemical binding]; other site 1104322003207 Q-loop/lid; other site 1104322003208 ABC transporter signature motif; other site 1104322003209 Walker B; other site 1104322003210 D-loop; other site 1104322003211 H-loop/switch region; other site 1104322003212 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 1104322003213 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322003214 dimer interface [polypeptide binding]; other site 1104322003215 conserved gate region; other site 1104322003216 putative PBP binding loops; other site 1104322003217 ABC-ATPase subunit interface; other site 1104322003218 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1104322003219 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1104322003220 potential frameshift: common BLAST hit: gi|125623882|ref|YP_001032365.1| transcriptional regulator 1104322003221 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1104322003222 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 1104322003223 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1104322003224 Active Sites [active] 1104322003225 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 1104322003226 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1104322003227 ParB-like nuclease domain; Region: ParB; smart00470 1104322003228 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322003229 non-specific DNA binding site [nucleotide binding]; other site 1104322003230 salt bridge; other site 1104322003231 sequence-specific DNA binding site [nucleotide binding]; other site 1104322003232 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1104322003233 Cation efflux family; Region: Cation_efflux; pfam01545 1104322003234 Phosphate-starvation-inducible E; Region: PsiE; cl01264 1104322003235 pantothenate kinase; Provisional; Region: PRK05439 1104322003236 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1104322003237 ATP-binding site [chemical binding]; other site 1104322003238 CoA-binding site [chemical binding]; other site 1104322003239 Mg2+-binding site [ion binding]; other site 1104322003240 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1104322003241 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322003242 S-adenosylmethionine binding site [chemical binding]; other site 1104322003243 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1104322003244 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1104322003245 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1104322003246 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1104322003247 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1104322003248 intersubunit interface [polypeptide binding]; other site 1104322003249 active site 1104322003250 catalytic residue [active] 1104322003251 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1104322003252 active site 1104322003253 catalytic motif [active] 1104322003254 Zn binding site [ion binding]; other site 1104322003255 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1104322003256 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1104322003257 ligand binding site [chemical binding]; other site 1104322003258 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104322003259 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104322003260 DNA-binding site [nucleotide binding]; DNA binding site 1104322003261 UTRA domain; Region: UTRA; pfam07702 1104322003262 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 1104322003263 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1104322003264 dimer interface [polypeptide binding]; other site 1104322003265 phosphorylation site [posttranslational modification] 1104322003266 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1104322003267 ATP binding site [chemical binding]; other site 1104322003268 Mg2+ binding site [ion binding]; other site 1104322003269 G-X-G motif; other site 1104322003270 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104322003271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104322003272 active site 1104322003273 phosphorylation site [posttranslational modification] 1104322003274 intermolecular recognition site; other site 1104322003275 dimerization interface [polypeptide binding]; other site 1104322003276 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1104322003277 DNA binding site [nucleotide binding] 1104322003278 putative DNA-binding protein; Validated; Region: PRK00118 1104322003279 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1104322003280 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322003281 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322003282 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003283 Transposase; Region: HTH_Tnp_1; pfam01527 1104322003284 putative transposase OrfB; Reviewed; Region: PHA02517 1104322003285 HTH-like domain; Region: HTH_21; pfam13276 1104322003286 Integrase core domain; Region: rve; pfam00665 1104322003287 Integrase core domain; Region: rve_3; pfam13683 1104322003288 HTH-like domain; Region: HTH_21; pfam13276 1104322003289 Integrase core domain; Region: rve; pfam00665 1104322003290 Integrase core domain; Region: rve_2; pfam13333 1104322003291 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003292 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322003293 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003294 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322003295 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322003296 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1104322003297 Walker A motif; other site 1104322003298 ATP binding site [chemical binding]; other site 1104322003299 Walker B motif; other site 1104322003300 arginine finger; other site 1104322003301 potential frameshift: common BLAST hit: gi|125624881|ref|YP_001033364.1| transposase for insertion sequence element IS712H 1104322003302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1104322003303 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1104322003304 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322003305 MULE transposase domain; Region: MULE; pfam10551 1104322003306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003307 Transposase; Region: HTH_Tnp_1; pfam01527 1104322003308 putative transposase OrfB; Reviewed; Region: PHA02517 1104322003309 HTH-like domain; Region: HTH_21; pfam13276 1104322003310 Integrase core domain; Region: rve; pfam00665 1104322003311 Integrase core domain; Region: rve_3; pfam13683 1104322003312 Predicted transcriptional regulator [Transcription]; Region: COG2378 1104322003313 HTH domain; Region: HTH_11; pfam08279 1104322003314 WYL domain; Region: WYL; pfam13280 1104322003315 lipoprotein signal peptidase; Provisional; Region: PRK14797 1104322003316 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1104322003317 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1104322003318 RNA binding surface [nucleotide binding]; other site 1104322003319 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1104322003320 active site 1104322003321 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1104322003322 active site 1104322003323 conserved hypothetical integral membrane protein; Region: TIGR03766 1104322003324 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1104322003325 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1104322003326 Ligand binding site; other site 1104322003327 Putative Catalytic site; other site 1104322003328 DXD motif; other site 1104322003329 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104322003330 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104322003331 active site 1104322003332 phosphorylation site [posttranslational modification] 1104322003333 intermolecular recognition site; other site 1104322003334 dimerization interface [polypeptide binding]; other site 1104322003335 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1104322003336 DNA binding site [nucleotide binding] 1104322003337 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 1104322003338 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1104322003339 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104322003340 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1104322003341 dimer interface [polypeptide binding]; other site 1104322003342 phosphorylation site [posttranslational modification] 1104322003343 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1104322003344 ATP binding site [chemical binding]; other site 1104322003345 Mg2+ binding site [ion binding]; other site 1104322003346 G-X-G motif; other site 1104322003347 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1104322003348 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1104322003349 active site 1104322003350 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1104322003351 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1104322003352 glutaminase active site [active] 1104322003353 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1104322003354 dimer interface [polypeptide binding]; other site 1104322003355 active site 1104322003356 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1104322003357 dimer interface [polypeptide binding]; other site 1104322003358 active site 1104322003359 hypothetical protein; Reviewed; Region: PRK00024 1104322003360 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1104322003361 MPN+ (JAMM) motif; other site 1104322003362 Zinc-binding site [ion binding]; other site 1104322003363 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 1104322003364 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1104322003365 CoA binding domain; Region: CoA_binding; pfam02629 1104322003366 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 1104322003367 ArsC family; Region: ArsC; pfam03960 1104322003368 putative catalytic residues [active] 1104322003369 thiol/disulfide switch; other site 1104322003370 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104322003371 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322003372 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322003373 Walker A/P-loop; other site 1104322003374 ATP binding site [chemical binding]; other site 1104322003375 Q-loop/lid; other site 1104322003376 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322003377 ABC transporter signature motif; other site 1104322003378 Walker B; other site 1104322003379 D-loop; other site 1104322003380 ABC transporter; Region: ABC_tran_2; pfam12848 1104322003381 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322003382 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322003383 active site 1104322003384 dihydroorotase; Validated; Region: pyrC; PRK09357 1104322003385 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1104322003386 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1104322003387 active site 1104322003388 Transposase; Region: HTH_Tnp_1; cl17663 1104322003389 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1104322003390 Sel1-like repeats; Region: SEL1; smart00671 1104322003391 Sel1 repeat; Region: Sel1; cl02723 1104322003392 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322003393 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322003394 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322003395 MULE transposase domain; Region: MULE; pfam10551 1104322003396 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003397 Transposase; Region: HTH_Tnp_1; pfam01527 1104322003398 putative transposase OrfB; Reviewed; Region: PHA02517 1104322003399 HTH-like domain; Region: HTH_21; pfam13276 1104322003400 Integrase core domain; Region: rve; pfam00665 1104322003401 Integrase core domain; Region: rve_3; pfam13683 1104322003402 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1104322003403 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1104322003404 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1104322003405 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1104322003406 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1104322003407 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1104322003408 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1104322003409 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 1104322003410 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1104322003411 active site 1104322003412 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1104322003413 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 1104322003414 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1104322003415 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1104322003416 minor groove reading motif; other site 1104322003417 helix-hairpin-helix signature motif; other site 1104322003418 substrate binding pocket [chemical binding]; other site 1104322003419 active site 1104322003420 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1104322003421 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1104322003422 Family of unknown function (DUF633); Region: DUF633; pfam04816 1104322003423 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1104322003424 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1104322003425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 1104322003426 sugar phosphate phosphatase; Provisional; Region: PRK10513 1104322003427 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322003428 active site 1104322003429 motif I; other site 1104322003430 motif II; other site 1104322003431 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322003432 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1104322003433 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104322003434 Zn2+ binding site [ion binding]; other site 1104322003435 Mg2+ binding site [ion binding]; other site 1104322003436 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1104322003437 Predicted membrane protein [Function unknown]; Region: COG3371 1104322003438 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1104322003439 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1104322003440 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1104322003441 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 1104322003442 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1104322003443 potential frameshift: common BLAST hit: gi|125624296|ref|YP_001032779.1| proton-dependent manganese transporter group C beta 1104322003444 manganese transport protein MntH; Reviewed; Region: PRK00701 1104322003445 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1104322003446 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1104322003447 PhoH-like protein; Region: PhoH; pfam02562 1104322003448 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 1104322003449 nudix motif; other site 1104322003450 metal-binding heat shock protein; Provisional; Region: PRK00016 1104322003451 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1104322003452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3575 1104322003453 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322003454 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322003455 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1104322003456 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322003457 active site 1104322003458 potential frameshift: common BLAST hit: gi|125624289|ref|YP_001032772.1| superfamily II DNA/RNA helicase 1104322003459 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1104322003460 nucleotide binding region [chemical binding]; other site 1104322003461 ATP-binding site [chemical binding]; other site 1104322003462 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1104322003463 ATP binding site [chemical binding]; other site 1104322003464 putative Mg++ binding site [ion binding]; other site 1104322003465 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1104322003466 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1104322003467 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1104322003468 VanZ like family; Region: VanZ; pfam04892 1104322003469 hypothetical protein; Provisional; Region: PRK14013 1104322003470 potential frameshift: common BLAST hit: gi|116511932|ref|YP_809148.1| 5'-nucleotidase/2',3'-cyclic phosphodiesterase related esterase 1104322003471 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1104322003472 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1104322003473 active site 1104322003474 metal binding site [ion binding]; metal-binding site 1104322003475 T5orf172 domain; Region: T5orf172; pfam10544 1104322003476 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1104322003477 motif 1; other site 1104322003478 dimer interface [polypeptide binding]; other site 1104322003479 active site 1104322003480 motif 2; other site 1104322003481 motif 3; other site 1104322003482 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1104322003483 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1104322003484 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1104322003485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 1104322003486 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 1104322003487 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1104322003488 putative Cl- selectivity filter; other site 1104322003489 putative pore gating glutamate residue; other site 1104322003490 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1104322003491 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1104322003492 active site 1104322003493 (T/H)XGH motif; other site 1104322003494 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1104322003495 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 1104322003496 active site 1104322003497 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1104322003498 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322003499 Coenzyme A binding pocket [chemical binding]; other site 1104322003500 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1104322003501 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 1104322003502 homodimer interface [polypeptide binding]; other site 1104322003503 NAD binding pocket [chemical binding]; other site 1104322003504 ATP binding pocket [chemical binding]; other site 1104322003505 Mg binding site [ion binding]; other site 1104322003506 active-site loop [active] 1104322003507 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104322003508 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104322003509 Walker A/P-loop; other site 1104322003510 ATP binding site [chemical binding]; other site 1104322003511 Q-loop/lid; other site 1104322003512 ABC transporter signature motif; other site 1104322003513 Walker B; other site 1104322003514 D-loop; other site 1104322003515 H-loop/switch region; other site 1104322003516 FtsX-like permease family; Region: FtsX; pfam02687 1104322003517 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104322003518 FtsX-like permease family; Region: FtsX; pfam02687 1104322003519 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1104322003520 catalytic triad [active] 1104322003521 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1104322003522 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104322003523 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1104322003524 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 1104322003525 GTP-binding protein LepA; Provisional; Region: PRK05433 1104322003526 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1104322003527 G1 box; other site 1104322003528 putative GEF interaction site [polypeptide binding]; other site 1104322003529 GTP/Mg2+ binding site [chemical binding]; other site 1104322003530 Switch I region; other site 1104322003531 G2 box; other site 1104322003532 G3 box; other site 1104322003533 Switch II region; other site 1104322003534 G4 box; other site 1104322003535 G5 box; other site 1104322003536 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 1104322003537 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 1104322003538 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1104322003539 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1104322003540 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1104322003541 NAD(P) binding site [chemical binding]; other site 1104322003542 putative active site [active] 1104322003543 inner membrane transporter YjeM; Provisional; Region: PRK15238 1104322003544 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003545 Transposase; Region: HTH_Tnp_1; pfam01527 1104322003546 putative transposase OrfB; Reviewed; Region: PHA02517 1104322003547 HTH-like domain; Region: HTH_21; pfam13276 1104322003548 Integrase core domain; Region: rve; pfam00665 1104322003549 Integrase core domain; Region: rve_3; pfam13683 1104322003550 DNA gyrase subunit A; Validated; Region: PRK05560 1104322003551 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1104322003552 CAP-like domain; other site 1104322003553 active site 1104322003554 primary dimer interface [polypeptide binding]; other site 1104322003555 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104322003556 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104322003557 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104322003558 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104322003559 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104322003560 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104322003561 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1104322003562 ApbE family; Region: ApbE; pfam02424 1104322003563 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 1104322003564 active site 1104322003565 catalytic site [active] 1104322003566 Domain of unknown function (DUF373); Region: DUF373; cl12079 1104322003567 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1104322003568 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1104322003569 Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: LysU; COG1190 1104322003570 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1104322003571 dimer interface [polypeptide binding]; other site 1104322003572 putative anticodon binding site; other site 1104322003573 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1104322003574 Part of AAA domain; Region: AAA_19; pfam13245 1104322003575 Family description; Region: UvrD_C_2; pfam13538 1104322003576 potential frameshift: common BLAST hit: gi|125624252|ref|YP_001032735.1| ADP-ribose pyrophosphatase 1104322003577 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1104322003578 nudix motif; other site 1104322003579 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1104322003580 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1104322003581 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1104322003582 dimer interface [polypeptide binding]; other site 1104322003583 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 1104322003584 L-aspartate oxidase; Provisional; Region: PRK06175 1104322003585 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322003586 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322003587 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1104322003588 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1104322003589 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1104322003590 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 1104322003591 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1104322003592 RNA binding site [nucleotide binding]; other site 1104322003593 active site 1104322003594 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1104322003595 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1104322003596 active site 1104322003597 Riboflavin kinase; Region: Flavokinase; smart00904 1104322003598 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1104322003599 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1104322003600 dimer interface [polypeptide binding]; other site 1104322003601 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104322003602 NAD binding site [chemical binding]; other site 1104322003603 substrate binding site [chemical binding]; other site 1104322003604 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1104322003605 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1104322003606 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1104322003607 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1104322003608 putative active site [active] 1104322003609 potential frameshift: common BLAST hit: gi|125624237|ref|YP_001032720.1| sucrose-specific PTS system IIBC component 1104322003610 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1104322003611 active site turn [active] 1104322003612 phosphorylation site [posttranslational modification] 1104322003613 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1104322003614 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1104322003615 HPr interaction site; other site 1104322003616 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1104322003617 active site 1104322003618 phosphorylation site [posttranslational modification] 1104322003619 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104322003620 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104322003621 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104322003622 putative active site [active] 1104322003623 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 1104322003624 triosephosphate isomerase; Provisional; Region: PRK14565 1104322003625 substrate binding site [chemical binding]; other site 1104322003626 dimer interface [polypeptide binding]; other site 1104322003627 catalytic triad [active] 1104322003628 potential frameshift: common BLAST hit: gi|125624234|ref|YP_001032717.1| penicillin acylase 1104322003629 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1104322003630 active site 1104322003631 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1104322003632 potential frameshift: common BLAST hit: gi|281491632|ref|YP_003353612.1| co-activator of prophage gene expression LbrA 1104322003633 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1104322003634 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 1104322003635 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1104322003636 ParB-like nuclease domain; Region: ParB; smart00470 1104322003637 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1104322003638 HemN C-terminal domain; Region: HemN_C; pfam06969 1104322003639 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1104322003640 PlyB is a bacteriophage endolysin that displays potent lytic activity toward Bacillus anthracis. PlyB has an N-terminal glycosyl hydrolase family 25 (GH25) catalytic domain and a C-terminal bacterial SH3-like domain, SH3b. Both domains are required for...; Region: GH25_PlyB-like; cd06523 1104322003641 active site 1104322003642 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 1104322003643 catalytic motif [active] 1104322003644 Zn binding site [ion binding]; other site 1104322003645 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 1104322003646 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1104322003647 active site 1104322003648 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1104322003649 active site 2 [active] 1104322003650 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1104322003651 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322003652 active site 1104322003653 motif I; other site 1104322003654 motif II; other site 1104322003655 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322003656 Predicted membrane protein [Function unknown]; Region: COG4478 1104322003657 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1104322003658 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1104322003659 active site 1104322003660 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104322003661 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1104322003662 active site 1104322003663 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322003664 active site 1104322003665 xanthine permease; Region: pbuX; TIGR03173 1104322003666 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1104322003667 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1104322003668 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1104322003669 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1104322003670 folate binding site [chemical binding]; other site 1104322003671 NADP+ binding site [chemical binding]; other site 1104322003672 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1104322003673 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1104322003674 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322003675 Walker A motif; other site 1104322003676 ATP binding site [chemical binding]; other site 1104322003677 Walker B motif; other site 1104322003678 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1104322003679 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1104322003680 G1 box; other site 1104322003681 GTP/Mg2+ binding site [chemical binding]; other site 1104322003682 Switch I region; other site 1104322003683 G2 box; other site 1104322003684 G3 box; other site 1104322003685 Switch II region; other site 1104322003686 G4 box; other site 1104322003687 G5 box; other site 1104322003688 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 1104322003689 active site 1104322003690 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1104322003691 catalytic center binding site [active] 1104322003692 ATP binding site [chemical binding]; other site 1104322003693 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1104322003694 GTP cyclohydrolase I; Provisional; Region: PLN03044 1104322003695 active site 1104322003696 dihydropteroate synthase; Region: DHPS; TIGR01496 1104322003697 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1104322003698 substrate binding pocket [chemical binding]; other site 1104322003699 dimer interface [polypeptide binding]; other site 1104322003700 inhibitor binding site; inhibition site 1104322003701 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1104322003702 nudix motif; other site 1104322003703 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1104322003704 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104322003705 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104322003706 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1104322003707 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1104322003708 Substrate-binding site [chemical binding]; other site 1104322003709 Substrate specificity [chemical binding]; other site 1104322003710 homoserine dehydrogenase; Provisional; Region: PRK06349 1104322003711 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1104322003712 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1104322003713 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1104322003714 homoserine kinase; Provisional; Region: PRK01212 1104322003715 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1104322003716 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1104322003717 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1104322003718 FAD binding domain; Region: FAD_binding_4; pfam01565 1104322003719 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1104322003720 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1104322003721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322003722 Walker A/P-loop; other site 1104322003723 ATP binding site [chemical binding]; other site 1104322003724 Q-loop/lid; other site 1104322003725 ABC transporter signature motif; other site 1104322003726 Walker B; other site 1104322003727 D-loop; other site 1104322003728 H-loop/switch region; other site 1104322003729 TOBE domain; Region: TOBE_2; pfam08402 1104322003730 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322003731 dimer interface [polypeptide binding]; other site 1104322003732 conserved gate region; other site 1104322003733 putative PBP binding loops; other site 1104322003734 ABC-ATPase subunit interface; other site 1104322003735 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1104322003736 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322003737 dimer interface [polypeptide binding]; other site 1104322003738 conserved gate region; other site 1104322003739 putative PBP binding loops; other site 1104322003740 ABC-ATPase subunit interface; other site 1104322003741 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1104322003742 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1104322003743 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1104322003744 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104322003745 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104322003746 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322003747 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104322003748 putative substrate translocation pore; other site 1104322003749 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322003750 MULE transposase domain; Region: MULE; pfam10551 1104322003751 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 1104322003752 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1104322003753 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1104322003754 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1104322003755 inhibitor binding site; inhibition site 1104322003756 active site 1104322003757 putative transposase OrfB; Reviewed; Region: PHA02517 1104322003758 HTH-like domain; Region: HTH_21; pfam13276 1104322003759 Integrase core domain; Region: rve; pfam00665 1104322003760 Integrase core domain; Region: rve_3; pfam13683 1104322003761 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003762 Transposase; Region: HTH_Tnp_1; pfam01527 1104322003763 hypothetical protein; Provisional; Region: PRK14013 1104322003764 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104322003765 dimerization interface [polypeptide binding]; other site 1104322003766 putative DNA binding site [nucleotide binding]; other site 1104322003767 putative Zn2+ binding site [ion binding]; other site 1104322003768 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1104322003769 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1104322003770 potential catalytic triad [active] 1104322003771 conserved cys residue [active] 1104322003772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322003773 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1104322003774 NAD(P) binding site [chemical binding]; other site 1104322003775 active site 1104322003776 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1104322003777 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1104322003778 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322003779 active site 1104322003780 DNA binding site [nucleotide binding] 1104322003781 Int/Topo IB signature motif; other site 1104322003782 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1104322003783 Glucose inhibited division protein A; Region: GIDA; pfam01134 1104322003784 DNA topoisomerase I; Validated; Region: PRK05582 1104322003785 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1104322003786 active site 1104322003787 interdomain interaction site; other site 1104322003788 putative metal-binding site [ion binding]; other site 1104322003789 nucleotide binding site [chemical binding]; other site 1104322003790 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1104322003791 domain I; other site 1104322003792 DNA binding groove [nucleotide binding] 1104322003793 phosphate binding site [ion binding]; other site 1104322003794 domain II; other site 1104322003795 domain III; other site 1104322003796 nucleotide binding site [chemical binding]; other site 1104322003797 catalytic site [active] 1104322003798 domain IV; other site 1104322003799 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1104322003800 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1104322003801 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1104322003802 DNA protecting protein DprA; Region: dprA; TIGR00732 1104322003803 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1104322003804 homotrimer interaction site [polypeptide binding]; other site 1104322003805 putative active site [active] 1104322003806 alpha-acetolactate decarboxylase; Region: acetolac_decarb; TIGR01252 1104322003807 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322003808 MULE transposase domain; Region: MULE; pfam10551 1104322003809 threonine dehydratase; Validated; Region: PRK08639 1104322003810 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1104322003811 tetramer interface [polypeptide binding]; other site 1104322003812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322003813 catalytic residue [active] 1104322003814 C-terminal regulatory domain of Threonine dehydratase; Region: Thr_dehydrat_C; pfam00585 1104322003815 potential frameshift: common BLAST hit: gi|125624101|ref|YP_001032584.1| ketol-acid reductoisomerase 1104322003816 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1104322003817 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1104322003818 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1104322003819 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1104322003820 putative valine binding site [chemical binding]; other site 1104322003821 dimer interface [polypeptide binding]; other site 1104322003822 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1104322003823 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 1104322003824 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1104322003825 PYR/PP interface [polypeptide binding]; other site 1104322003826 dimer interface [polypeptide binding]; other site 1104322003827 TPP binding site [chemical binding]; other site 1104322003828 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104322003829 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1104322003830 TPP-binding site [chemical binding]; other site 1104322003831 dimer interface [polypeptide binding]; other site 1104322003832 potential frameshift: common BLAST hit: gi|125624104|ref|YP_001032587.1| dihydroxy-acid dehydratase 1104322003833 Dehydratase family; Region: ILVD_EDD; cl00340 1104322003834 Dehydratase family; Region: ILVD_EDD; cl00340 1104322003835 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1104322003836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322003837 Walker A/P-loop; other site 1104322003838 ATP binding site [chemical binding]; other site 1104322003839 Q-loop/lid; other site 1104322003840 ABC transporter signature motif; other site 1104322003841 Walker B; other site 1104322003842 D-loop; other site 1104322003843 H-loop/switch region; other site 1104322003844 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1104322003845 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1104322003846 substrate binding site [chemical binding]; other site 1104322003847 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1104322003848 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1104322003849 substrate binding site [chemical binding]; other site 1104322003850 ligand binding site [chemical binding]; other site 1104322003851 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_30; cd04689 1104322003852 nudix motif; other site 1104322003853 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1104322003854 tartrate dehydrogenase; Region: TTC; TIGR02089 1104322003855 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1104322003856 potential frameshift: common BLAST hit: gi|116512053|ref|YP_809269.1| 2-isopropylmalate synthase 1104322003857 potential frameshift: common BLAST hit: gi|116512053|ref|YP_809269.1| 2-isopropylmalate synthase 1104322003858 2-isopropylmalate synthase; Validated; Region: PRK00915 1104322003859 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1104322003860 metal binding site [ion binding]; metal-binding site 1104322003861 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1104322003862 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1104322003863 active site 1104322003864 catalytic residues [active] 1104322003865 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1104322003866 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1104322003867 active site residue [active] 1104322003868 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 1104322003869 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 1104322003870 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1104322003871 active site 1104322003872 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1104322003873 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1104322003874 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1104322003875 metal binding site [ion binding]; metal-binding site 1104322003876 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1104322003877 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1104322003878 substrate binding site [chemical binding]; other site 1104322003879 glutamase interaction surface [polypeptide binding]; other site 1104322003880 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 1104322003881 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1104322003882 catalytic residues [active] 1104322003883 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1104322003884 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1104322003885 putative active site [active] 1104322003886 oxyanion strand; other site 1104322003887 catalytic triad [active] 1104322003888 Phosphotransferase enzyme family; Region: APH; pfam01636 1104322003889 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 1104322003890 active site 1104322003891 ATP binding site [chemical binding]; other site 1104322003892 antibiotic binding site [chemical binding]; other site 1104322003893 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1104322003894 putative active site pocket [active] 1104322003895 4-fold oligomerization interface [polypeptide binding]; other site 1104322003896 metal binding residues [ion binding]; metal-binding site 1104322003897 3-fold/trimer interface [polypeptide binding]; other site 1104322003898 potential frameshift: common BLAST hit: gi|116512062|ref|YP_809278.1| histidinol dehydrogenase 1104322003899 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cl10029 1104322003900 product binding site; other site 1104322003901 substrate binding site [chemical binding]; other site 1104322003902 catalytic residues [active] 1104322003903 dimerization interface [polypeptide binding]; other site 1104322003904 zinc binding site [ion binding]; other site 1104322003905 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1104322003906 NAD binding site [chemical binding]; other site 1104322003907 zinc binding site [ion binding]; other site 1104322003908 ATP phosphoribosyltransferase; Region: HisG; cl15266 1104322003909 ATP phosphoribosyltransferase; Region: HisG; cl15266 1104322003910 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 1104322003911 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1104322003912 dimer interface [polypeptide binding]; other site 1104322003913 motif 1; other site 1104322003914 active site 1104322003915 motif 2; other site 1104322003916 motif 3; other site 1104322003917 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1104322003918 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1104322003919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322003920 homodimer interface [polypeptide binding]; other site 1104322003921 catalytic residue [active] 1104322003922 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 1104322003923 potential frameshift: common BLAST hit: gi|281491048|ref|YP_003353028.1| dihydroxyacetone kinase family protein 1104322003924 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1104322003925 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 1104322003926 DAK2 domain; Region: Dak2; pfam02734 1104322003927 EDD domain protein, DegV family; Region: DegV; TIGR00762 1104322003928 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1104322003929 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322003930 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322003931 Predicted membrane protein [Function unknown]; Region: COG4852 1104322003932 TspO/MBR family; Region: TspO_MBR; pfam03073 1104322003933 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 1104322003934 RNB domain; Region: RNB; pfam00773 1104322003935 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1104322003936 RNA binding site [nucleotide binding]; other site 1104322003937 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322003938 non-specific DNA binding site [nucleotide binding]; other site 1104322003939 salt bridge; other site 1104322003940 sequence-specific DNA binding site [nucleotide binding]; other site 1104322003941 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322003942 Winged helix-turn helix; Region: HTH_33; pfam13592 1104322003943 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322003944 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322003945 Predicted transcriptional regulators [Transcription]; Region: COG1733 1104322003946 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1104322003947 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322003948 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1104322003949 putative substrate translocation pore; other site 1104322003950 acetolactate synthase; Reviewed; Region: PRK08617 1104322003951 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1104322003952 PYR/PP interface [polypeptide binding]; other site 1104322003953 dimer interface [polypeptide binding]; other site 1104322003954 TPP binding site [chemical binding]; other site 1104322003955 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104322003956 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1104322003957 TPP-binding site [chemical binding]; other site 1104322003958 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1104322003959 binding surface 1104322003960 TPR motif; other site 1104322003961 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1104322003962 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1104322003963 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1104322003964 binding surface 1104322003965 TPR motif; other site 1104322003966 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1104322003967 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1104322003968 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1104322003969 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322003970 S-adenosylmethionine binding site [chemical binding]; other site 1104322003971 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1104322003972 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1104322003973 TRAM domain; Region: TRAM; cl01282 1104322003974 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322003975 S-adenosylmethionine binding site [chemical binding]; other site 1104322003976 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104322003977 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104322003978 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104322003979 putative active site [active] 1104322003980 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1104322003981 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1104322003982 putative active site cavity [active] 1104322003983 putative transposase OrfB; Reviewed; Region: PHA02517 1104322003984 HTH-like domain; Region: HTH_21; pfam13276 1104322003985 Integrase core domain; Region: rve; pfam00665 1104322003986 Integrase core domain; Region: rve_3; pfam13683 1104322003987 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003988 Transposase; Region: HTH_Tnp_1; pfam01527 1104322003989 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104322003990 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104322003991 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1104322003992 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1104322003993 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104322003994 active site 1104322003995 catalytic tetrad [active] 1104322003996 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1104322003997 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1104322003998 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322003999 Transposase; Region: HTH_Tnp_1; pfam01527 1104322004000 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1104322004001 Integrase core domain; Region: rve; pfam00665 1104322004002 Integrase core domain; Region: rve_3; pfam13683 1104322004003 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 1104322004004 FAD binding site [chemical binding]; other site 1104322004005 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1104322004006 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1104322004007 THF binding site; other site 1104322004008 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1104322004009 substrate binding site [chemical binding]; other site 1104322004010 THF binding site; other site 1104322004011 zinc-binding site [ion binding]; other site 1104322004012 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1104322004013 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1104322004014 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1104322004015 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 1104322004016 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1104322004017 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104322004018 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1104322004019 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1104322004020 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104322004021 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1104322004022 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 1104322004023 DltD N-terminal region; Region: DltD_N; pfam04915 1104322004024 DltD central region; Region: DltD_M; pfam04918 1104322004025 DltD C-terminal region; Region: DltD_C; pfam04914 1104322004026 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 1104322004027 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1104322004028 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1104322004029 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1104322004030 acyl-activating enzyme (AAE) consensus motif; other site 1104322004031 AMP binding site [chemical binding]; other site 1104322004032 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1104322004033 thiamine phosphate binding site [chemical binding]; other site 1104322004034 active site 1104322004035 pyrophosphate binding site [ion binding]; other site 1104322004036 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1104322004037 substrate binding site [chemical binding]; other site 1104322004038 dimer interface [polypeptide binding]; other site 1104322004039 ATP binding site [chemical binding]; other site 1104322004040 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1104322004041 substrate binding site [chemical binding]; other site 1104322004042 multimerization interface [polypeptide binding]; other site 1104322004043 ATP binding site [chemical binding]; other site 1104322004044 potential frameshift: common BLAST hit: gi|281491785|ref|YP_003353765.1| family 2 glycosyltransferase 1104322004045 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1104322004046 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322004047 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322004048 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1104322004049 homodimer interface [polypeptide binding]; other site 1104322004050 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1104322004051 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322004052 putative substrate translocation pore; other site 1104322004053 MarR family; Region: MarR_2; pfam12802 1104322004054 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 1104322004055 core dimer interface [polypeptide binding]; other site 1104322004056 peripheral dimer interface [polypeptide binding]; other site 1104322004057 L10 interface [polypeptide binding]; other site 1104322004058 L11 interface [polypeptide binding]; other site 1104322004059 putative EF-Tu interaction site [polypeptide binding]; other site 1104322004060 putative EF-G interaction site [polypeptide binding]; other site 1104322004061 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 1104322004062 23S rRNA interface [nucleotide binding]; other site 1104322004063 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1104322004064 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104322004065 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322004066 non-specific DNA binding site [nucleotide binding]; other site 1104322004067 salt bridge; other site 1104322004068 sequence-specific DNA binding site [nucleotide binding]; other site 1104322004069 Predicted transcriptional regulator [Transcription]; Region: COG2932 1104322004070 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1104322004071 Catalytic site [active] 1104322004072 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104322004073 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322004074 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1104322004075 Walker A/P-loop; other site 1104322004076 ATP binding site [chemical binding]; other site 1104322004077 Q-loop/lid; other site 1104322004078 ABC transporter signature motif; other site 1104322004079 Walker B; other site 1104322004080 D-loop; other site 1104322004081 H-loop/switch region; other site 1104322004082 potential frameshift: common BLAST hit: gi|125624031|ref|YP_001032514.1| ABC transporter ABC binding and permease 1104322004083 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322004084 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322004085 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1104322004086 Walker A/P-loop; other site 1104322004087 ATP binding site [chemical binding]; other site 1104322004088 Q-loop/lid; other site 1104322004089 ABC transporter signature motif; other site 1104322004090 Walker B; other site 1104322004091 D-loop; other site 1104322004092 H-loop/switch region; other site 1104322004093 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322004094 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 1104322004095 Predicted membrane protein [Function unknown]; Region: COG3601 1104322004096 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1104322004097 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1104322004098 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1104322004099 RNA binding surface [nucleotide binding]; other site 1104322004100 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1104322004101 active site 1104322004102 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1104322004103 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1104322004104 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 1104322004105 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 1104322004106 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1104322004107 active site 1104322004108 catalytic residues [active] 1104322004109 DNA binding site [nucleotide binding] 1104322004110 Int/Topo IB signature motif; other site 1104322004111 FOG: CBS domain [General function prediction only]; Region: COG0517 1104322004112 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 1104322004113 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1104322004114 active site 1104322004115 metal binding site [ion binding]; metal-binding site 1104322004116 homotetramer interface [polypeptide binding]; other site 1104322004117 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 1104322004118 active site 1104322004119 dimerization interface [polypeptide binding]; other site 1104322004120 glutamate racemase; Provisional; Region: PRK00865 1104322004121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 1104322004122 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1104322004123 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1104322004124 active site 1104322004125 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104322004126 substrate binding site [chemical binding]; other site 1104322004127 catalytic residues [active] 1104322004128 dimer interface [polypeptide binding]; other site 1104322004129 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1104322004130 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1104322004131 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1104322004132 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1104322004133 active site 1104322004134 dimer interface [polypeptide binding]; other site 1104322004135 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1104322004136 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1104322004137 active site 1104322004138 FMN binding site [chemical binding]; other site 1104322004139 substrate binding site [chemical binding]; other site 1104322004140 3Fe-4S cluster binding site [ion binding]; other site 1104322004141 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1104322004142 domain interface; other site 1104322004143 maltose O-acetyltransferase; Provisional; Region: PRK10092 1104322004144 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1104322004145 active site 1104322004146 substrate binding site [chemical binding]; other site 1104322004147 trimer interface [polypeptide binding]; other site 1104322004148 CoA binding site [chemical binding]; other site 1104322004149 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1104322004150 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1104322004151 homodimer interface [polypeptide binding]; other site 1104322004152 substrate-cofactor binding pocket; other site 1104322004153 catalytic residue [active] 1104322004154 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1104322004155 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1104322004156 potential frameshift: common BLAST hit: gi|125624009|ref|YP_001032492.1| glutamate decarboxylase 1104322004157 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1104322004158 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1104322004159 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104322004160 catalytic residue [active] 1104322004161 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 1104322004162 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322004163 non-specific DNA binding site [nucleotide binding]; other site 1104322004164 salt bridge; other site 1104322004165 sequence-specific DNA binding site [nucleotide binding]; other site 1104322004166 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1104322004167 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004168 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004169 MULE transposase domain; Region: MULE; pfam10551 1104322004170 putative transposase OrfB; Reviewed; Region: PHA02517 1104322004171 HTH-like domain; Region: HTH_21; pfam13276 1104322004172 Integrase core domain; Region: rve; pfam00665 1104322004173 Integrase core domain; Region: rve_3; pfam13683 1104322004174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322004175 Transposase; Region: HTH_Tnp_1; pfam01527 1104322004176 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322004177 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322004178 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1104322004179 RNA/DNA hybrid binding site [nucleotide binding]; other site 1104322004180 active site 1104322004181 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1104322004182 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1104322004183 GTP/Mg2+ binding site [chemical binding]; other site 1104322004184 G4 box; other site 1104322004185 G5 box; other site 1104322004186 G1 box; other site 1104322004187 Switch I region; other site 1104322004188 G2 box; other site 1104322004189 G3 box; other site 1104322004190 Switch II region; other site 1104322004191 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1104322004192 Coenzyme A binding pocket [chemical binding]; other site 1104322004193 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322004194 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322004195 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1104322004196 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1104322004197 metal binding site [ion binding]; metal-binding site 1104322004198 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1104322004199 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1104322004200 dimer interface [polypeptide binding]; other site 1104322004201 putative PBP binding regions; other site 1104322004202 ABC-ATPase subunit interface; other site 1104322004203 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004204 MULE transposase domain; Region: MULE; pfam10551 1104322004205 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1104322004206 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1104322004207 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1104322004208 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1104322004209 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1104322004210 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1104322004211 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 1104322004212 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1104322004213 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1104322004214 Walker A/P-loop; other site 1104322004215 ATP binding site [chemical binding]; other site 1104322004216 Q-loop/lid; other site 1104322004217 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322004218 ABC transporter signature motif; other site 1104322004219 Walker B; other site 1104322004220 D-loop; other site 1104322004221 H-loop/switch region; other site 1104322004222 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1104322004223 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1104322004224 active site 1104322004225 metal binding site [ion binding]; metal-binding site 1104322004226 DNA binding site [nucleotide binding] 1104322004227 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1104322004228 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1104322004229 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1104322004230 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1104322004231 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 1104322004232 ArsC family; Region: ArsC; pfam03960 1104322004233 putative catalytic residues [active] 1104322004234 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1104322004235 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1104322004236 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1104322004237 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1104322004238 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1104322004239 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322004240 S-adenosylmethionine binding site [chemical binding]; other site 1104322004241 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1104322004242 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1104322004243 Walker A/P-loop; other site 1104322004244 ATP binding site [chemical binding]; other site 1104322004245 Q-loop/lid; other site 1104322004246 ABC transporter signature motif; other site 1104322004247 Walker B; other site 1104322004248 D-loop; other site 1104322004249 H-loop/switch region; other site 1104322004250 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1104322004251 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104322004252 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1104322004253 TM-ABC transporter signature motif; other site 1104322004254 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1104322004255 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1104322004256 TM-ABC transporter signature motif; other site 1104322004257 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1104322004258 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1104322004259 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104322004260 NAD binding site [chemical binding]; other site 1104322004261 dimer interface [polypeptide binding]; other site 1104322004262 substrate binding site [chemical binding]; other site 1104322004263 pyruvate kinase; Provisional; Region: PRK05826 1104322004264 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 1104322004265 domain interfaces; other site 1104322004266 active site 1104322004267 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1104322004268 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1104322004269 active site 1104322004270 ADP/pyrophosphate binding site [chemical binding]; other site 1104322004271 dimerization interface [polypeptide binding]; other site 1104322004272 allosteric effector site; other site 1104322004273 fructose-1,6-bisphosphate binding site; other site 1104322004274 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1104322004275 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1104322004276 active site 1104322004277 dimer interface [polypeptide binding]; other site 1104322004278 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 1104322004279 5-bromo-4-chloroindolyl phosphate hydrolysis protein [General function prediction only]; Region: XpaC; COG4915 1104322004280 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1104322004281 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1104322004282 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1104322004283 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1104322004284 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1104322004285 active site 1104322004286 tetramer interface; other site 1104322004287 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 1104322004288 trimer interface [polypeptide binding]; other site 1104322004289 Predicted membrane protein [Function unknown]; Region: COG4769 1104322004290 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1104322004291 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1104322004292 substrate binding pocket [chemical binding]; other site 1104322004293 chain length determination region; other site 1104322004294 substrate-Mg2+ binding site; other site 1104322004295 catalytic residues [active] 1104322004296 aspartate-rich region 1; other site 1104322004297 active site lid residues [active] 1104322004298 aspartate-rich region 2; other site 1104322004299 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1104322004300 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322004301 S-adenosylmethionine binding site [chemical binding]; other site 1104322004302 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1104322004303 active site 1104322004304 dimer interface [polypeptide binding]; other site 1104322004305 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1104322004306 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 1104322004307 heterodimer interface [polypeptide binding]; other site 1104322004308 active site 1104322004309 FMN binding site [chemical binding]; other site 1104322004310 homodimer interface [polypeptide binding]; other site 1104322004311 substrate binding site [chemical binding]; other site 1104322004312 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1104322004313 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 1104322004314 FAD binding pocket [chemical binding]; other site 1104322004315 FAD binding motif [chemical binding]; other site 1104322004316 phosphate binding motif [ion binding]; other site 1104322004317 beta-alpha-beta structure motif; other site 1104322004318 NAD binding pocket [chemical binding]; other site 1104322004319 Iron coordination center [ion binding]; other site 1104322004320 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322004321 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104322004322 putative substrate translocation pore; other site 1104322004323 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1104322004324 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1104322004325 DNA-binding site [nucleotide binding]; DNA binding site 1104322004326 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1104322004327 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1104322004328 beta-galactosidase; Region: BGL; TIGR03356 1104322004329 short chain dehydrogenase; Provisional; Region: PRK12937 1104322004330 classical (c) SDRs; Region: SDR_c; cd05233 1104322004331 NAD(P) binding site [chemical binding]; other site 1104322004332 active site 1104322004333 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104322004334 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322004335 dimer interface [polypeptide binding]; other site 1104322004336 conserved gate region; other site 1104322004337 ABC-ATPase subunit interface; other site 1104322004338 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322004339 dimer interface [polypeptide binding]; other site 1104322004340 conserved gate region; other site 1104322004341 putative PBP binding loops; other site 1104322004342 ABC-ATPase subunit interface; other site 1104322004343 potential frameshift: common BLAST hit: gi|116512194|ref|YP_809410.1| ABC-type sugar transport system, periplasmic component 1104322004344 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104322004345 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104322004346 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 1104322004347 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 1104322004348 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 1104322004349 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1104322004350 hypothetical protein; Provisional; Region: PRK12495 1104322004351 potential frameshift: common BLAST hit: gi|116512198|ref|YP_809414.1| beta-propeller domain-containing protein 1104322004352 Repair protein; Region: Repair_PSII; pfam04536 1104322004353 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1104322004354 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 1104322004355 pseudouridine synthase; Region: TIGR00093 1104322004356 probable active site [active] 1104322004357 glycerol kinase; Provisional; Region: glpK; PRK00047 1104322004358 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1104322004359 N- and C-terminal domain interface [polypeptide binding]; other site 1104322004360 active site 1104322004361 MgATP binding site [chemical binding]; other site 1104322004362 catalytic site [active] 1104322004363 metal binding site [ion binding]; metal-binding site 1104322004364 glycerol binding site [chemical binding]; other site 1104322004365 homotetramer interface [polypeptide binding]; other site 1104322004366 homodimer interface [polypeptide binding]; other site 1104322004367 FBP binding site [chemical binding]; other site 1104322004368 protein IIAGlc interface [polypeptide binding]; other site 1104322004369 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1104322004370 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1104322004371 potential frameshift: common BLAST hit: gi|116512202|ref|YP_809418.1| glycerol uptake facilitator 1104322004372 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 1104322004373 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1104322004374 amphipathic channel; other site 1104322004375 Asn-Pro-Ala signature motifs; other site 1104322004376 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004377 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004378 MULE transposase domain; Region: MULE; pfam10551 1104322004379 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1104322004380 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1104322004381 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1104322004382 putative transposase OrfB; Reviewed; Region: PHA02517 1104322004383 HTH-like domain; Region: HTH_21; pfam13276 1104322004384 Integrase core domain; Region: rve; pfam00665 1104322004385 Integrase core domain; Region: rve_3; pfam13683 1104322004386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322004387 Transposase; Region: HTH_Tnp_1; pfam01527 1104322004388 HTH-like domain; Region: HTH_21; pfam13276 1104322004389 Integrase core domain; Region: rve; pfam00665 1104322004390 Integrase core domain; Region: rve_2; pfam13333 1104322004391 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322004392 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322004393 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322004394 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322004395 putative transposase OrfB; Reviewed; Region: PHA02517 1104322004396 HTH-like domain; Region: HTH_21; pfam13276 1104322004397 Integrase core domain; Region: rve; pfam00665 1104322004398 Integrase core domain; Region: rve_3; pfam13683 1104322004399 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322004400 Transposase; Region: HTH_Tnp_1; pfam01527 1104322004401 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1104322004402 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104322004403 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1104322004404 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1104322004405 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104322004406 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1104322004407 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1104322004408 IMP binding site; other site 1104322004409 dimer interface [polypeptide binding]; other site 1104322004410 interdomain contacts; other site 1104322004411 partial ornithine binding site; other site 1104322004412 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1104322004413 catalytic residues [active] 1104322004414 dimer interface [polypeptide binding]; other site 1104322004415 potential frameshift: common BLAST hit: gi|281491908|ref|YP_003353888.1| peptidoglycan hydrolase 1104322004416 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1104322004417 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1104322004418 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104322004419 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104322004420 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1104322004421 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322004422 motif II; other site 1104322004423 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1104322004424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1104322004425 putative transposase OrfB; Reviewed; Region: PHA02517 1104322004426 HTH-like domain; Region: HTH_21; pfam13276 1104322004427 Integrase core domain; Region: rve; pfam00665 1104322004428 Integrase core domain; Region: rve_3; pfam13683 1104322004429 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322004430 Transposase; Region: HTH_Tnp_1; pfam01527 1104322004431 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 1104322004432 homopentamer interface [polypeptide binding]; other site 1104322004433 active site 1104322004434 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1104322004435 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1104322004436 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1104322004437 dimerization interface [polypeptide binding]; other site 1104322004438 active site 1104322004439 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1104322004440 Lumazine binding domain; Region: Lum_binding; pfam00677 1104322004441 Lumazine binding domain; Region: Lum_binding; pfam00677 1104322004442 potential frameshift: common BLAST hit: gi|125624336|ref|YP_001032819.1| riboflavin biosynthesis protein RibD 1104322004443 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 1104322004444 RibD C-terminal domain; Region: RibD_C; cl17279 1104322004445 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 1104322004446 catalytic motif [active] 1104322004447 Zn binding site [ion binding]; other site 1104322004448 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1104322004449 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1104322004450 oligomer interface [polypeptide binding]; other site 1104322004451 Cl binding site [ion binding]; other site 1104322004452 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 1104322004453 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1104322004454 CAP-like domain; other site 1104322004455 active site 1104322004456 primary dimer interface [polypeptide binding]; other site 1104322004457 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1104322004458 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322004459 Coenzyme A binding pocket [chemical binding]; other site 1104322004460 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1104322004461 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1104322004462 active site 1104322004463 catalytic site [active] 1104322004464 substrate binding site [chemical binding]; other site 1104322004465 potential frameshift: common BLAST hit: gi|116511810|ref|YP_809026.1| amidase 1104322004466 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1104322004467 catalytic triad [active] 1104322004468 conserved cis-peptide bond; other site 1104322004469 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 1104322004470 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1104322004471 Mg2+ binding site [ion binding]; other site 1104322004472 G-X-G motif; other site 1104322004473 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1104322004474 anchoring element; other site 1104322004475 dimer interface [polypeptide binding]; other site 1104322004476 ATP binding site [chemical binding]; other site 1104322004477 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1104322004478 active site 1104322004479 putative metal-binding site [ion binding]; other site 1104322004480 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1104322004481 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1104322004482 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1104322004483 catalytic residues [active] 1104322004484 Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]; Region: NrdI; COG1780 1104322004485 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1104322004486 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1104322004487 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1104322004488 active site 1104322004489 dimer interface [polypeptide binding]; other site 1104322004490 catalytic residues [active] 1104322004491 effector binding site; other site 1104322004492 R2 peptide binding site; other site 1104322004493 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1104322004494 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1104322004495 dimer interface [polypeptide binding]; other site 1104322004496 putative radical transfer pathway; other site 1104322004497 diiron center [ion binding]; other site 1104322004498 tyrosyl radical; other site 1104322004499 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1104322004500 FtsX-like permease family; Region: FtsX; pfam02687 1104322004501 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1104322004502 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322004503 Walker A/P-loop; other site 1104322004504 ATP binding site [chemical binding]; other site 1104322004505 Q-loop/lid; other site 1104322004506 ABC transporter signature motif; other site 1104322004507 Walker B; other site 1104322004508 D-loop; other site 1104322004509 H-loop/switch region; other site 1104322004510 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1104322004511 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1104322004512 RF-1 domain; Region: RF-1; pfam00472 1104322004513 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1104322004514 putative phosphoesterase; Region: acc_ester; TIGR03729 1104322004515 hypothetical protein; Provisional; Region: PRK13662 1104322004516 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1104322004517 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004518 MULE transposase domain; Region: MULE; pfam10551 1104322004519 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322004520 Transposase; Region: HTH_Tnp_1; pfam01527 1104322004521 putative transposase OrfB; Reviewed; Region: PHA02517 1104322004522 HTH-like domain; Region: HTH_21; pfam13276 1104322004523 Integrase core domain; Region: rve; pfam00665 1104322004524 Integrase core domain; Region: rve_3; pfam13683 1104322004525 putative transposase OrfB; Reviewed; Region: PHA02517 1104322004526 HTH-like domain; Region: HTH_21; pfam13276 1104322004527 Integrase core domain; Region: rve; pfam00665 1104322004528 Integrase core domain; Region: rve_2; pfam13333 1104322004529 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322004530 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322004531 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 1104322004532 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104322004533 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104322004534 Walker A/P-loop; other site 1104322004535 ATP binding site [chemical binding]; other site 1104322004536 Q-loop/lid; other site 1104322004537 ABC transporter signature motif; other site 1104322004538 Walker B; other site 1104322004539 D-loop; other site 1104322004540 H-loop/switch region; other site 1104322004541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1104322004542 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1104322004543 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1104322004544 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 1104322004545 dimer interface [polypeptide binding]; other site 1104322004546 phosphate binding site [ion binding]; other site 1104322004547 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 1104322004548 AAA domain; Region: AAA_18; pfam13238 1104322004549 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1104322004550 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1104322004551 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1104322004552 putative active site [active] 1104322004553 catalytic site [active] 1104322004554 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1104322004555 putative active site [active] 1104322004556 catalytic site [active] 1104322004557 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322004558 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322004559 active site 1104322004560 DNA binding site [nucleotide binding] 1104322004561 Int/Topo IB signature motif; other site 1104322004562 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1104322004563 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1104322004564 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1104322004565 recombinase A; Provisional; Region: recA; PRK09354 1104322004566 Walker A motif; other site 1104322004567 ATP binding site [chemical binding]; other site 1104322004568 Walker B motif; other site 1104322004569 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1104322004570 DNA binding site [nucleotide binding] 1104322004571 Predicted transcriptional regulator [Transcription]; Region: COG2932 1104322004572 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1104322004573 Catalytic site [active] 1104322004574 H+ Antiporter protein; Region: 2A0121; TIGR00900 1104322004575 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1104322004576 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1104322004577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322004578 Integrase core domain; Region: rve; pfam00665 1104322004579 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1104322004580 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1104322004581 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1104322004582 nucleotide binding site [chemical binding]; other site 1104322004583 NEF interaction site [polypeptide binding]; other site 1104322004584 SBD interface [polypeptide binding]; other site 1104322004585 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1104322004586 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 1104322004587 dimer interface [polypeptide binding]; other site 1104322004588 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1104322004589 Transcriptional regulator of heat shock gene [Transcription]; Region: HrcA; COG1420 1104322004590 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1104322004591 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1104322004592 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1104322004593 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1104322004594 catalytic core [active] 1104322004595 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1104322004596 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1104322004597 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1104322004598 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 1104322004599 UbiA prenyltransferase family; Region: UbiA; pfam01040 1104322004600 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1104322004601 putative catalytic site [active] 1104322004602 putative metal binding site [ion binding]; other site 1104322004603 putative phosphate binding site [ion binding]; other site 1104322004604 Isochorismatase family; Region: Isochorismatase; pfam00857 1104322004605 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1104322004606 catalytic triad [active] 1104322004607 conserved cis-peptide bond; other site 1104322004608 ribonuclease R; Region: RNase_R; TIGR02063 1104322004609 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1104322004610 RNB domain; Region: RNB; pfam00773 1104322004611 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1104322004612 RNA binding site [nucleotide binding]; other site 1104322004613 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1104322004614 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1104322004615 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104322004616 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104322004617 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 1104322004618 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104322004619 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1104322004620 Walker A/P-loop; other site 1104322004621 ATP binding site [chemical binding]; other site 1104322004622 Q-loop/lid; other site 1104322004623 ABC transporter signature motif; other site 1104322004624 Walker B; other site 1104322004625 D-loop; other site 1104322004626 H-loop/switch region; other site 1104322004627 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322004628 dimer interface [polypeptide binding]; other site 1104322004629 conserved gate region; other site 1104322004630 putative PBP binding loops; other site 1104322004631 ABC-ATPase subunit interface; other site 1104322004632 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104322004633 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1104322004634 substrate binding pocket [chemical binding]; other site 1104322004635 membrane-bound complex binding site; other site 1104322004636 hinge residues; other site 1104322004637 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1104322004638 NlpC/P60 family; Region: NLPC_P60; pfam00877 1104322004639 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1104322004640 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 1104322004641 Potassium binding sites [ion binding]; other site 1104322004642 Cesium cation binding sites [ion binding]; other site 1104322004643 hypothetical protein; Provisional; Region: PRK00967 1104322004644 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 1104322004645 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004646 MULE transposase domain; Region: MULE; pfam10551 1104322004647 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004648 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1104322004649 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1104322004650 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 1104322004651 phosphopentomutase; Provisional; Region: PRK05362 1104322004652 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1104322004653 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1104322004654 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1104322004655 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1104322004656 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1104322004657 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322004658 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322004659 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 1104322004660 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1104322004661 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1104322004662 Ligand binding site; other site 1104322004663 metal-binding site 1104322004664 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1104322004665 Integrase core domain; Region: rve; pfam00665 1104322004666 Integrase core domain; Region: rve_3; pfam13683 1104322004667 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322004668 Transposase; Region: HTH_Tnp_1; pfam01527 1104322004669 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1104322004670 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1104322004671 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1104322004672 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1104322004673 Walker A/P-loop; other site 1104322004674 ATP binding site [chemical binding]; other site 1104322004675 Q-loop/lid; other site 1104322004676 ABC transporter signature motif; other site 1104322004677 Walker B; other site 1104322004678 D-loop; other site 1104322004679 H-loop/switch region; other site 1104322004680 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1104322004681 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104322004682 potential frameshift: common BLAST hit: gi|29376984|ref|NP_816138.1| glycosyl transferase group 2 family protein 1104322004683 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1104322004684 active site 1104322004685 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1104322004686 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322004687 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322004688 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322004689 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104322004690 putative substrate translocation pore; other site 1104322004691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322004692 Predicted transcriptional regulators [Transcription]; Region: COG1695 1104322004693 MarR family; Region: MarR_2; pfam12802 1104322004694 MarR family; Region: MarR_2; cl17246 1104322004695 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1104322004696 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322004697 S-adenosylmethionine binding site [chemical binding]; other site 1104322004698 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1104322004699 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1104322004700 Mg2+ binding site [ion binding]; other site 1104322004701 G-X-G motif; other site 1104322004702 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1104322004703 anchoring element; other site 1104322004704 dimer interface [polypeptide binding]; other site 1104322004705 ATP binding site [chemical binding]; other site 1104322004706 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1104322004707 active site 1104322004708 putative metal-binding site [ion binding]; other site 1104322004709 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1104322004710 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1104322004711 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322004712 motif II; other site 1104322004713 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1104322004714 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 1104322004715 putative metal binding site [ion binding]; other site 1104322004716 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1104322004717 active site 1104322004718 metal binding site [ion binding]; metal-binding site 1104322004719 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1104322004720 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104322004721 Walker A/P-loop; other site 1104322004722 ATP binding site [chemical binding]; other site 1104322004723 Q-loop/lid; other site 1104322004724 ABC transporter signature motif; other site 1104322004725 Walker B; other site 1104322004726 D-loop; other site 1104322004727 H-loop/switch region; other site 1104322004728 EamA-like transporter family; Region: EamA; pfam00892 1104322004729 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1104322004730 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 1104322004731 potential frameshift: common BLAST hit: gi|125624437|ref|YP_001032920.1| malate dehydrogenase 1104322004732 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1104322004733 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1104322004734 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1104322004735 NAD(P) binding pocket [chemical binding]; other site 1104322004736 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1104322004737 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322004738 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322004739 ABC transporter; Region: ABC_tran_2; pfam12848 1104322004740 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1104322004741 acetoin reductase; Validated; Region: PRK08643 1104322004742 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1104322004743 NAD binding site [chemical binding]; other site 1104322004744 homotetramer interface [polypeptide binding]; other site 1104322004745 homodimer interface [polypeptide binding]; other site 1104322004746 active site 1104322004747 substrate binding site [chemical binding]; other site 1104322004748 potential frameshift: common BLAST hit: gi|125624441|ref|YP_001032924.1| 2,3-butanediol dehydrogenase 1104322004749 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1104322004750 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1104322004751 NAD(P) binding site [chemical binding]; other site 1104322004752 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1104322004753 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1104322004754 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1104322004755 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1104322004756 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1104322004757 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 1104322004758 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1104322004759 RNA binding site [nucleotide binding]; other site 1104322004760 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1104322004761 active site 1104322004762 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1104322004763 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1104322004764 motif II; other site 1104322004765 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104322004766 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1104322004767 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104322004768 active site 1104322004769 phosphorylation site [posttranslational modification] 1104322004770 intermolecular recognition site; other site 1104322004771 dimerization interface [polypeptide binding]; other site 1104322004772 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1104322004773 DNA binding residues [nucleotide binding] 1104322004774 dimerization interface [polypeptide binding]; other site 1104322004775 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104322004776 Histidine kinase; Region: HisKA_3; pfam07730 1104322004777 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1104322004778 ATP binding site [chemical binding]; other site 1104322004779 Mg2+ binding site [ion binding]; other site 1104322004780 G-X-G motif; other site 1104322004781 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1104322004782 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004783 MULE transposase domain; Region: MULE; pfam10551 1104322004784 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1104322004785 Predicted membrane protein [Function unknown]; Region: COG1511 1104322004786 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1104322004787 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322004788 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322004789 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1104322004790 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1104322004791 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104322004792 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1104322004793 IHF - DNA interface [nucleotide binding]; other site 1104322004794 IHF dimer interface [polypeptide binding]; other site 1104322004795 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1104322004796 Ligand Binding Site [chemical binding]; other site 1104322004797 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 1104322004798 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1104322004799 N-glycosyltransferase; Provisional; Region: PRK11204 1104322004800 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1104322004801 DXD motif; other site 1104322004802 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322004803 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1104322004804 Coenzyme A binding pocket [chemical binding]; other site 1104322004805 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1104322004806 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1104322004807 SnoaL-like domain; Region: SnoaL_3; pfam13474 1104322004808 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1104322004809 potential frameshift: common BLAST hit: gi|116511698|ref|YP_808914.1| ppGpp synthetase/hydrolase catalytic subunit 1104322004810 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1104322004811 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1104322004812 synthetase active site [active] 1104322004813 NTP binding site [chemical binding]; other site 1104322004814 metal binding site [ion binding]; metal-binding site 1104322004815 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322004816 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322004817 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004818 MULE transposase domain; Region: MULE; pfam10551 1104322004819 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104322004820 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1104322004821 dimerization interface [polypeptide binding]; other site 1104322004822 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104322004823 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104322004824 Walker A/P-loop; other site 1104322004825 ATP binding site [chemical binding]; other site 1104322004826 Q-loop/lid; other site 1104322004827 ABC transporter signature motif; other site 1104322004828 Walker B; other site 1104322004829 D-loop; other site 1104322004830 H-loop/switch region; other site 1104322004831 potential frameshift: common BLAST hit: gi|116511694|ref|YP_808910.1| ABC transporter permease 1104322004832 FtsX-like permease family; Region: FtsX; pfam02687 1104322004833 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 1104322004834 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 1104322004835 Mg++ binding site [ion binding]; other site 1104322004836 putative catalytic motif [active] 1104322004837 putative substrate binding site [chemical binding]; other site 1104322004838 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1104322004839 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1104322004840 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1104322004841 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 1104322004842 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 1104322004843 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 1104322004844 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1104322004845 MraW methylase family; Region: Methyltransf_5; pfam01795 1104322004846 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1104322004847 Protein of unknown function (DUF805); Region: DUF805; cl01224 1104322004848 Predicted membrane protein [Function unknown]; Region: COG3152 1104322004849 Predicted integral membrane protein [Function unknown]; Region: COG3548 1104322004850 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1104322004851 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1104322004852 Walker A/P-loop; other site 1104322004853 ATP binding site [chemical binding]; other site 1104322004854 Q-loop/lid; other site 1104322004855 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1104322004856 ABC transporter signature motif; other site 1104322004857 Walker B; other site 1104322004858 D-loop; other site 1104322004859 H-loop/switch region; other site 1104322004860 Arginine repressor [Transcription]; Region: ArgR; COG1438 1104322004861 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1104322004862 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1104322004863 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1104322004864 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1104322004865 RNA binding surface [nucleotide binding]; other site 1104322004866 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1104322004867 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104322004868 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1104322004869 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1104322004870 substrate binding pocket [chemical binding]; other site 1104322004871 chain length determination region; other site 1104322004872 substrate-Mg2+ binding site; other site 1104322004873 catalytic residues [active] 1104322004874 aspartate-rich region 1; other site 1104322004875 active site lid residues [active] 1104322004876 aspartate-rich region 2; other site 1104322004877 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1104322004878 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322004879 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322004880 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1104322004881 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1104322004882 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 1104322004883 generic binding surface II; other site 1104322004884 generic binding surface I; other site 1104322004885 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 1104322004886 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1104322004887 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1104322004888 homodimer interface [polypeptide binding]; other site 1104322004889 NADP binding site [chemical binding]; other site 1104322004890 substrate binding site [chemical binding]; other site 1104322004891 potential frameshift: common BLAST hit: gi|116511674|ref|YP_808890.1| copper-potassium transporting ATPase B 1104322004892 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1104322004893 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104322004894 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104322004895 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104322004896 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1104322004897 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1104322004898 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322004899 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322004900 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322004901 ABC-ATPase subunit interface; other site 1104322004902 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1104322004903 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1104322004904 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322004905 Walker A/P-loop; other site 1104322004906 ATP binding site [chemical binding]; other site 1104322004907 Q-loop/lid; other site 1104322004908 ABC transporter signature motif; other site 1104322004909 Walker B; other site 1104322004910 D-loop; other site 1104322004911 H-loop/switch region; other site 1104322004912 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1104322004913 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104322004914 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104322004915 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 1104322004916 ArsC family; Region: ArsC; pfam03960 1104322004917 putative catalytic residues [active] 1104322004918 thiol/disulfide switch; other site 1104322004919 alanine racemase; Reviewed; Region: alr; PRK00053 1104322004920 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1104322004921 active site 1104322004922 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1104322004923 dimer interface [polypeptide binding]; other site 1104322004924 substrate binding site [chemical binding]; other site 1104322004925 catalytic residues [active] 1104322004926 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1104322004927 dipeptidase PepV; Region: dipeptidase; TIGR01886 1104322004928 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1104322004929 active site 1104322004930 metal binding site [ion binding]; metal-binding site 1104322004931 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004932 MULE transposase domain; Region: MULE; pfam10551 1104322004933 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1104322004934 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1104322004935 minor groove reading motif; other site 1104322004936 helix-hairpin-helix signature motif; other site 1104322004937 substrate binding pocket [chemical binding]; other site 1104322004938 active site 1104322004939 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1104322004940 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1104322004941 DNA binding and oxoG recognition site [nucleotide binding] 1104322004942 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1104322004943 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1104322004944 GIY-YIG motif/motif A; other site 1104322004945 active site 1104322004946 catalytic site [active] 1104322004947 putative DNA binding site [nucleotide binding]; other site 1104322004948 metal binding site [ion binding]; metal-binding site 1104322004949 UvrB/uvrC motif; Region: UVR; pfam02151 1104322004950 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1104322004951 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1104322004952 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1104322004953 putative transposase OrfB; Reviewed; Region: PHA02517 1104322004954 HTH-like domain; Region: HTH_21; pfam13276 1104322004955 Integrase core domain; Region: rve; pfam00665 1104322004956 Integrase core domain; Region: rve_2; pfam13333 1104322004957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322004958 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322004959 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322004960 Homeodomain-like domain; Region: HTH_23; cl17451 1104322004961 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1104322004962 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1104322004963 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1104322004964 dimer interface [polypeptide binding]; other site 1104322004965 phosphorylation site [posttranslational modification] 1104322004966 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1104322004967 ATP binding site [chemical binding]; other site 1104322004968 Mg2+ binding site [ion binding]; other site 1104322004969 G-X-G motif; other site 1104322004970 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1104322004971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1104322004972 active site 1104322004973 phosphorylation site [posttranslational modification] 1104322004974 intermolecular recognition site; other site 1104322004975 dimerization interface [polypeptide binding]; other site 1104322004976 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1104322004977 DNA binding site [nucleotide binding] 1104322004978 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322004979 MULE transposase domain; Region: MULE; pfam10551 1104322004980 Fibronectin-binding repeat; Region: SSURE; pfam11966 1104322004981 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1104322004982 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1104322004983 RNA binding site [nucleotide binding]; other site 1104322004984 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1104322004985 RNA binding site [nucleotide binding]; other site 1104322004986 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1104322004987 RNA binding site [nucleotide binding]; other site 1104322004988 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1104322004989 RNA binding site [nucleotide binding]; other site 1104322004990 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1104322004991 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 1104322004992 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 1104322004993 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1104322004994 nucleotide binding site/active site [active] 1104322004995 HIT family signature motif; other site 1104322004996 catalytic residue [active] 1104322004997 Predicted membrane protein [Function unknown]; Region: COG4485 1104322004998 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1104322004999 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1104322005000 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1104322005001 metal-binding site [ion binding] 1104322005002 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104322005003 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1104322005004 metal-binding site [ion binding] 1104322005005 Predicted transcriptional regulator [Transcription]; Region: COG3682 1104322005006 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1104322005007 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1104322005008 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1104322005009 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1104322005010 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1104322005011 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1104322005012 putative L-serine binding site [chemical binding]; other site 1104322005013 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322005014 MULE transposase domain; Region: MULE; pfam10551 1104322005015 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1104322005016 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104322005017 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1104322005018 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104322005019 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005020 Transposase; Region: HTH_Tnp_1; pfam01527 1104322005021 putative transposase OrfB; Reviewed; Region: PHA02517 1104322005022 HTH-like domain; Region: HTH_21; pfam13276 1104322005023 Integrase core domain; Region: rve; pfam00665 1104322005024 Integrase core domain; Region: rve_3; pfam13683 1104322005025 putative transposase OrfB; Reviewed; Region: PHA02517 1104322005026 HTH-like domain; Region: HTH_21; pfam13276 1104322005027 Integrase core domain; Region: rve; pfam00665 1104322005028 Integrase core domain; Region: rve_2; pfam13333 1104322005029 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005030 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322005031 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005032 Homeodomain-like domain; Region: HTH_23; cl17451 1104322005033 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1104322005034 Lipase (class 2); Region: Lipase_2; pfam01674 1104322005035 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1104322005036 nucleophilic elbow; other site 1104322005037 catalytic triad; other site 1104322005038 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1104322005039 beta-galactosidase; Region: BGL; TIGR03356 1104322005040 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1104322005041 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104322005042 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104322005043 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104322005044 putative active site [active] 1104322005045 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1104322005046 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1104322005047 HIGH motif; other site 1104322005048 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1104322005049 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104322005050 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104322005051 active site 1104322005052 KMSKS motif; other site 1104322005053 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1104322005054 tRNA binding surface [nucleotide binding]; other site 1104322005055 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1104322005056 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1104322005057 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1104322005058 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 1104322005059 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1104322005060 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322005061 active site 1104322005062 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1104322005063 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1104322005064 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1104322005065 P loop; other site 1104322005066 GTP binding site [chemical binding]; other site 1104322005067 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 1104322005068 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322005069 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1104322005070 active site 1104322005071 motif I; other site 1104322005072 motif II; other site 1104322005073 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104322005074 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1104322005075 YibE/F-like protein; Region: YibE_F; cl02259 1104322005076 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 1104322005077 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1104322005078 Sulfatase; Region: Sulfatase; cl17466 1104322005079 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1104322005080 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1104322005081 Walker A/P-loop; other site 1104322005082 ATP binding site [chemical binding]; other site 1104322005083 Q-loop/lid; other site 1104322005084 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1104322005085 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1104322005086 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1104322005087 Q-loop/lid; other site 1104322005088 ABC transporter signature motif; other site 1104322005089 Walker B; other site 1104322005090 D-loop; other site 1104322005091 H-loop/switch region; other site 1104322005092 ribonuclease III; Reviewed; Region: rnc; PRK00102 1104322005093 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 1104322005094 dimerization interface [polypeptide binding]; other site 1104322005095 active site 1104322005096 metal binding site [ion binding]; metal-binding site 1104322005097 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 1104322005098 dsRNA binding site [nucleotide binding]; other site 1104322005099 potential frameshift: common BLAST hit: gi|281491297|ref|YP_003353277.1| ornithine carbamoyltransferase 1104322005100 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1104322005101 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1104322005102 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1104322005103 potential frameshift: common BLAST hit: gi|116511616|ref|YP_808832.1| acetylglutamate kinase 1104322005104 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1104322005105 nucleotide binding site [chemical binding]; other site 1104322005106 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1104322005107 substrate binding site [chemical binding]; other site 1104322005108 nucleotide binding site [chemical binding]; other site 1104322005109 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 1104322005110 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1104322005111 inhibitor-cofactor binding pocket; inhibition site 1104322005112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322005113 catalytic residue [active] 1104322005114 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1104322005115 heterotetramer interface [polypeptide binding]; other site 1104322005116 active site pocket [active] 1104322005117 cleavage site 1104322005118 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1104322005119 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1104322005120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005121 Transposase; Region: HTH_Tnp_1; pfam01527 1104322005122 putative transposase OrfB; Reviewed; Region: PHA02517 1104322005123 HTH-like domain; Region: HTH_21; pfam13276 1104322005124 Integrase core domain; Region: rve; pfam00665 1104322005125 Integrase core domain; Region: rve_3; pfam13683 1104322005126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005127 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322005128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005129 Transposase; Region: HTH_Tnp_1; cl17663 1104322005130 HTH-like domain; Region: HTH_21; pfam13276 1104322005131 Integrase core domain; Region: rve; pfam00665 1104322005132 Integrase core domain; Region: rve_2; pfam13333 1104322005133 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1104322005134 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1104322005135 NAD binding site [chemical binding]; other site 1104322005136 substrate binding site [chemical binding]; other site 1104322005137 putative active site [active] 1104322005138 Predicted membrane protein [Function unknown]; Region: COG4708 1104322005139 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 1104322005140 classical (c) SDRs; Region: SDR_c; cd05233 1104322005141 NAD(P) binding site [chemical binding]; other site 1104322005142 active site 1104322005143 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1104322005144 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1104322005145 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1104322005146 active site 1104322005147 HIGH motif; other site 1104322005148 KMSKS motif; other site 1104322005149 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1104322005150 tRNA binding surface [nucleotide binding]; other site 1104322005151 anticodon binding site; other site 1104322005152 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1104322005153 dimer interface [polypeptide binding]; other site 1104322005154 putative tRNA-binding site [nucleotide binding]; other site 1104322005155 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1104322005156 active site 1104322005157 putative catalytic site [active] 1104322005158 DNA binding site [nucleotide binding] 1104322005159 putative phosphate binding site [ion binding]; other site 1104322005160 metal binding site A [ion binding]; metal-binding site 1104322005161 AP binding site [nucleotide binding]; other site 1104322005162 metal binding site B [ion binding]; metal-binding site 1104322005163 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1104322005164 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104322005165 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1104322005166 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104322005167 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 1104322005168 ArsC family; Region: ArsC; pfam03960 1104322005169 putative ArsC-like catalytic residues; other site 1104322005170 putative TRX-like catalytic residues [active] 1104322005171 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 1104322005172 putative homodimer interface [polypeptide binding]; other site 1104322005173 putative homotetramer interface [polypeptide binding]; other site 1104322005174 putative metal binding site [ion binding]; other site 1104322005175 putative homodimer-homodimer interface [polypeptide binding]; other site 1104322005176 putative allosteric switch controlling residues; other site 1104322005177 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104322005178 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1104322005179 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104322005180 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104322005181 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 1104322005182 active site residue [active] 1104322005183 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1104322005184 active site residue [active] 1104322005185 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1104322005186 active site residue [active] 1104322005187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 1104322005188 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1104322005189 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1104322005190 dimer interface [polypeptide binding]; other site 1104322005191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322005192 catalytic residue [active] 1104322005193 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 1104322005194 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1104322005195 homodimer interface [polypeptide binding]; other site 1104322005196 substrate-cofactor binding pocket; other site 1104322005197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322005198 catalytic residue [active] 1104322005199 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; COG0825 1104322005200 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1104322005201 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 1104322005202 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1104322005203 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1104322005204 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104322005205 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1104322005206 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104322005207 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 1104322005208 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1104322005209 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1104322005210 carboxyltransferase (CT) interaction site; other site 1104322005211 biotinylation site [posttranslational modification]; other site 1104322005212 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1104322005213 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1104322005214 dimer interface [polypeptide binding]; other site 1104322005215 active site 1104322005216 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1104322005217 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1104322005218 NAD(P) binding site [chemical binding]; other site 1104322005219 homotetramer interface [polypeptide binding]; other site 1104322005220 homodimer interface [polypeptide binding]; other site 1104322005221 active site 1104322005222 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1104322005223 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1104322005224 acyl carrier protein; Provisional; Region: acpP; PRK00982 1104322005225 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1104322005226 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 1104322005227 dimer interface [polypeptide binding]; other site 1104322005228 active site 1104322005229 CoA binding pocket [chemical binding]; other site 1104322005230 MarR family; Region: MarR; pfam01047 1104322005231 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1104322005232 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1104322005233 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1104322005234 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1104322005235 translation initiation factor IF-2; Region: IF-2; TIGR00487 1104322005236 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1104322005237 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1104322005238 G1 box; other site 1104322005239 putative GEF interaction site [polypeptide binding]; other site 1104322005240 GTP/Mg2+ binding site [chemical binding]; other site 1104322005241 Switch I region; other site 1104322005242 G2 box; other site 1104322005243 G3 box; other site 1104322005244 Switch II region; other site 1104322005245 G4 box; other site 1104322005246 G5 box; other site 1104322005247 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 1104322005248 Translation-initiation factor 2; Region: IF-2; pfam11987 1104322005249 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 1104322005250 hypothetical protein; Provisional; Region: PRK07283 1104322005251 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 1104322005252 putative RNA binding cleft [nucleotide binding]; other site 1104322005253 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1104322005254 NusA N-terminal domain; Region: NusA_N; pfam08529 1104322005255 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 1104322005256 RNA binding site [nucleotide binding]; other site 1104322005257 homodimer interface [polypeptide binding]; other site 1104322005258 NusA-like KH domain; Region: KH_5; pfam13184 1104322005259 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 1104322005260 G-X-X-G motif; other site 1104322005261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 1104322005262 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1104322005263 putative oligomer interface [polypeptide binding]; other site 1104322005264 putative RNA binding site [nucleotide binding]; other site 1104322005265 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1104322005266 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1104322005267 potential frameshift: common BLAST hit: gi|125624590|ref|YP_001033073.1| sortase 1104322005268 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1104322005269 active site 1104322005270 catalytic site [active] 1104322005271 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 1104322005272 CD20-like family; Region: CD20; pfam04103 1104322005273 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1104322005274 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322005275 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322005276 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104322005277 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322005278 non-specific DNA binding site [nucleotide binding]; other site 1104322005279 salt bridge; other site 1104322005280 sequence-specific DNA binding site [nucleotide binding]; other site 1104322005281 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1104322005282 GTP-binding protein Der; Reviewed; Region: PRK00093 1104322005283 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1104322005284 G1 box; other site 1104322005285 GTP/Mg2+ binding site [chemical binding]; other site 1104322005286 Switch I region; other site 1104322005287 G2 box; other site 1104322005288 Switch II region; other site 1104322005289 G3 box; other site 1104322005290 G4 box; other site 1104322005291 G5 box; other site 1104322005292 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1104322005293 G1 box; other site 1104322005294 GTP/Mg2+ binding site [chemical binding]; other site 1104322005295 Switch I region; other site 1104322005296 G2 box; other site 1104322005297 G3 box; other site 1104322005298 Switch II region; other site 1104322005299 G4 box; other site 1104322005300 G5 box; other site 1104322005301 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1104322005302 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1104322005303 dimer interface [polypeptide binding]; other site 1104322005304 FMN binding site [chemical binding]; other site 1104322005305 NADPH bind site [chemical binding]; other site 1104322005306 primosomal protein DnaI; Reviewed; Region: PRK08939 1104322005307 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1104322005308 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322005309 Walker A motif; other site 1104322005310 ATP binding site [chemical binding]; other site 1104322005311 Walker B motif; other site 1104322005312 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1104322005313 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 1104322005314 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1104322005315 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 1104322005316 ATP cone domain; Region: ATP-cone; pfam03477 1104322005317 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322005318 S-adenosylmethionine binding site [chemical binding]; other site 1104322005319 Thiamine kinase and related kinases [Coenzyme transport and metabolism]; Region: ycfN; COG0510 1104322005320 Phosphotransferase enzyme family; Region: APH; pfam01636 1104322005321 active site 1104322005322 ATP binding site [chemical binding]; other site 1104322005323 substrate binding site [chemical binding]; other site 1104322005324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 1104322005325 replicative DNA helicase; Provisional; Region: PRK05748 1104322005326 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1104322005327 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 1104322005328 Walker A motif; other site 1104322005329 ATP binding site [chemical binding]; other site 1104322005330 Walker B motif; other site 1104322005331 DNA binding loops [nucleotide binding] 1104322005332 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1104322005333 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1104322005334 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1104322005335 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1104322005336 DHH family; Region: DHH; pfam01368 1104322005337 DHHA1 domain; Region: DHHA1; pfam02272 1104322005338 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1104322005339 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322005340 motif II; other site 1104322005341 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1104322005342 MarR family; Region: MarR_2; pfam12802 1104322005343 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1104322005344 Patatin-like phospholipase; Region: Patatin; pfam01734 1104322005345 active site 1104322005346 nucleophile elbow; other site 1104322005347 aspartate kinase; Reviewed; Region: PRK09034 1104322005348 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1104322005349 nucleotide binding site [chemical binding]; other site 1104322005350 substrate binding site [chemical binding]; other site 1104322005351 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 1104322005352 allosteric regulatory residue; other site 1104322005353 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 1104322005354 potential frameshift: common BLAST hit: gi|116511546|ref|YP_808762.1| membrane protease family stomatin/prohibitin-like protein 1104322005355 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1104322005356 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1104322005357 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 1104322005358 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1104322005359 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322005360 active site 1104322005361 motif I; other site 1104322005362 motif II; other site 1104322005363 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104322005364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4696 1104322005365 metal binding site [ion binding]; metal-binding site 1104322005366 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1104322005367 active site 1104322005368 homodimer interface [polypeptide binding]; other site 1104322005369 homotetramer interface [polypeptide binding]; other site 1104322005370 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1104322005371 DHH family; Region: DHH; pfam01368 1104322005372 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1104322005373 DRTGG domain; Region: DRTGG; pfam07085 1104322005374 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 1104322005375 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1104322005376 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1104322005377 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1104322005378 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1104322005379 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 1104322005380 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1104322005381 dimer interface [polypeptide binding]; other site 1104322005382 tetramer interface [polypeptide binding]; other site 1104322005383 PYR/PP interface [polypeptide binding]; other site 1104322005384 TPP binding site [chemical binding]; other site 1104322005385 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1104322005386 TPP-binding site; other site 1104322005387 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 1104322005388 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1104322005389 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1104322005390 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1104322005391 substrate binding site [chemical binding]; other site 1104322005392 oxyanion hole (OAH) forming residues; other site 1104322005393 trimer interface [polypeptide binding]; other site 1104322005394 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1104322005395 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 1104322005396 acyl-activating enzyme (AAE) consensus motif; other site 1104322005397 putative AMP binding site [chemical binding]; other site 1104322005398 putative active site [active] 1104322005399 putative CoA binding site [chemical binding]; other site 1104322005400 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 1104322005401 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 1104322005402 active site 1104322005403 octamer interface [polypeptide binding]; other site 1104322005404 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1104322005405 CoenzymeA binding site [chemical binding]; other site 1104322005406 subunit interaction site [polypeptide binding]; other site 1104322005407 PHB binding site; other site 1104322005408 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104322005409 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104322005410 DNA binding site [nucleotide binding] 1104322005411 domain linker motif; other site 1104322005412 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1104322005413 dimerization interface [polypeptide binding]; other site 1104322005414 ligand binding site [chemical binding]; other site 1104322005415 potential frameshift: common BLAST hit: gi|116511529|ref|YP_808745.1| alpha-glucosidase 1104322005416 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 1104322005417 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 1104322005418 active site 1104322005419 catalytic site [active] 1104322005420 Protein of unknown function, DUF624; Region: DUF624; pfam04854 1104322005421 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1104322005422 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1104322005423 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1104322005424 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322005425 dimer interface [polypeptide binding]; other site 1104322005426 conserved gate region; other site 1104322005427 ABC-ATPase subunit interface; other site 1104322005428 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1104322005429 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322005430 dimer interface [polypeptide binding]; other site 1104322005431 conserved gate region; other site 1104322005432 ABC-ATPase subunit interface; other site 1104322005433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1104322005434 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1104322005435 nucleoside/Zn binding site; other site 1104322005436 dimer interface [polypeptide binding]; other site 1104322005437 catalytic motif [active] 1104322005438 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1104322005439 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 1104322005440 active site 1104322005441 metal binding site [ion binding]; metal-binding site 1104322005442 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1104322005443 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104322005444 DNA-binding site [nucleotide binding]; DNA binding site 1104322005445 RNA-binding motif; other site 1104322005446 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104322005447 DNA-binding site [nucleotide binding]; DNA binding site 1104322005448 RNA-binding motif; other site 1104322005449 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1104322005450 substrate binding site [chemical binding]; other site 1104322005451 THF binding site; other site 1104322005452 zinc-binding site [ion binding]; other site 1104322005453 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1104322005454 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1104322005455 putative NAD(P) binding site [chemical binding]; other site 1104322005456 dimer interface [polypeptide binding]; other site 1104322005457 Predicted membrane protein [Function unknown]; Region: COG3619 1104322005458 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 1104322005459 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104322005460 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104322005461 Walker A/P-loop; other site 1104322005462 ATP binding site [chemical binding]; other site 1104322005463 Q-loop/lid; other site 1104322005464 ABC transporter signature motif; other site 1104322005465 Walker B; other site 1104322005466 D-loop; other site 1104322005467 H-loop/switch region; other site 1104322005468 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104322005469 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1104322005470 FtsX-like permease family; Region: FtsX; pfam02687 1104322005471 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1104322005472 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1104322005473 Predicted integral membrane protein [Function unknown]; Region: COG3548 1104322005474 potential frameshift: common BLAST hit: gi|125624645|ref|YP_001033128.1| multidrug resistance ABC transporter ATP-binding protein/permease 1104322005475 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1104322005476 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322005477 Walker A/P-loop; other site 1104322005478 ATP binding site [chemical binding]; other site 1104322005479 Q-loop/lid; other site 1104322005480 ABC transporter signature motif; other site 1104322005481 Walker B; other site 1104322005482 D-loop; other site 1104322005483 H-loop/switch region; other site 1104322005484 potential frameshift: common BLAST hit: gi|15672693|ref|NP_266867.1| multidrug resistance ABC transporter ATP binding and permease 1104322005485 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322005486 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1104322005487 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322005488 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1104322005489 oxyanion hole [active] 1104322005490 Flavodoxin domain; Region: Flavodoxin_5; cl17428 1104322005491 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104322005492 putative DNA binding site [nucleotide binding]; other site 1104322005493 putative Zn2+ binding site [ion binding]; other site 1104322005494 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1104322005495 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 1104322005496 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322005497 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322005498 Walker A/P-loop; other site 1104322005499 ATP binding site [chemical binding]; other site 1104322005500 Q-loop/lid; other site 1104322005501 ABC transporter signature motif; other site 1104322005502 Walker B; other site 1104322005503 D-loop; other site 1104322005504 H-loop/switch region; other site 1104322005505 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 1104322005506 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1104322005507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322005508 Walker A/P-loop; other site 1104322005509 ATP binding site [chemical binding]; other site 1104322005510 Q-loop/lid; other site 1104322005511 ABC transporter signature motif; other site 1104322005512 Walker B; other site 1104322005513 D-loop; other site 1104322005514 H-loop/switch region; other site 1104322005515 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1104322005516 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1104322005517 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1104322005518 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1104322005519 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1104322005520 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322005521 CAAX protease self-immunity; Region: Abi; pfam02517 1104322005522 COMC family; Region: ComC; pfam03047 1104322005523 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322005524 non-specific DNA binding site [nucleotide binding]; other site 1104322005525 salt bridge; other site 1104322005526 sequence-specific DNA binding site [nucleotide binding]; other site 1104322005527 potential frameshift: common BLAST hit: gi|116511496|ref|YP_808712.1| amylopullulanase 1104322005528 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1104322005529 active site 1104322005530 catalytic site [active] 1104322005531 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1104322005532 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1104322005533 homodimer interface [polypeptide binding]; other site 1104322005534 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1104322005535 active site pocket [active] 1104322005536 potential frameshift: common BLAST hit: gi|125624660|ref|YP_001033143.1| glycogen synthase 1104322005537 glycogen synthase; Provisional; Region: glgA; PRK00654 1104322005538 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1104322005539 homodimer interface [polypeptide binding]; other site 1104322005540 ADP-binding pocket [chemical binding]; other site 1104322005541 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1104322005542 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 1104322005543 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1104322005544 ligand binding site; other site 1104322005545 oligomer interface; other site 1104322005546 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1104322005547 dimer interface [polypeptide binding]; other site 1104322005548 N-terminal domain interface [polypeptide binding]; other site 1104322005549 sulfate 1 binding site; other site 1104322005550 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1104322005551 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1104322005552 ligand binding site; other site 1104322005553 oligomer interface; other site 1104322005554 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1104322005555 dimer interface [polypeptide binding]; other site 1104322005556 N-terminal domain interface [polypeptide binding]; other site 1104322005557 sulfate 1 binding site; other site 1104322005558 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 1104322005559 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 1104322005560 Transcription termination factor [Transcription]; Region: NusB; COG0781 1104322005561 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1104322005562 elongation factor P; Validated; Region: PRK00529 1104322005563 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1104322005564 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 1104322005565 RNA binding site [nucleotide binding]; other site 1104322005566 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 1104322005567 RNA binding site [nucleotide binding]; other site 1104322005568 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1104322005569 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1104322005570 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1104322005571 active site 1104322005572 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1104322005573 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1104322005574 S-adenosylmethionine binding site [chemical binding]; other site 1104322005575 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1104322005576 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 1104322005577 putative active site [active] 1104322005578 putative metal binding site [ion binding]; other site 1104322005579 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1104322005580 topology modulation protein; Reviewed; Region: PRK08118 1104322005581 AAA domain; Region: AAA_17; pfam13207 1104322005582 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1104322005583 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1104322005584 active site 1104322005585 Uncharacterized conserved protein [Function unknown]; Region: COG3592 1104322005586 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1104322005587 potential frameshift: common BLAST hit: gi|116511480|ref|YP_808696.1| branched-chain amino acid permease 1104322005588 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1104322005589 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1104322005590 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1104322005591 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322005592 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322005593 N-glycosyltransferase; Provisional; Region: PRK11204 1104322005594 putative transposase OrfB; Reviewed; Region: PHA02517 1104322005595 HTH-like domain; Region: HTH_21; pfam13276 1104322005596 Integrase core domain; Region: rve; pfam00665 1104322005597 Integrase core domain; Region: rve_3; pfam13683 1104322005598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005599 Transposase; Region: HTH_Tnp_1; pfam01527 1104322005600 potential frameshift: common BLAST hit: gi|125623503|ref|YP_001031986.1| cation transporter E1-E2 family ATPase 1104322005601 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104322005602 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1104322005603 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104322005604 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1104322005605 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104322005606 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 1104322005607 ArsC family; Region: ArsC; pfam03960 1104322005608 putative catalytic residues [active] 1104322005609 thiol/disulfide switch; other site 1104322005610 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1104322005611 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1104322005612 oligomer interface [polypeptide binding]; other site 1104322005613 active site residues [active] 1104322005614 Isocitrate dehydrogenases [Energy production and conversion]; Region: Icd; COG0538 1104322005615 isocitrate dehydrogenase; Validated; Region: PRK06451 1104322005616 potential frameshift: common BLAST hit: gi|125623496|ref|YP_001031979.1| aconitate hydratase 1104322005617 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1104322005618 substrate binding site [chemical binding]; other site 1104322005619 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1104322005620 substrate binding site [chemical binding]; other site 1104322005621 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1104322005622 ligand binding site [chemical binding]; other site 1104322005623 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1104322005624 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 1104322005625 dimer interface [polypeptide binding]; other site 1104322005626 Citrate synthase; Region: Citrate_synt; pfam00285 1104322005627 active site 1104322005628 citrylCoA binding site [chemical binding]; other site 1104322005629 oxalacetate/citrate binding site [chemical binding]; other site 1104322005630 coenzyme A binding site [chemical binding]; other site 1104322005631 catalytic triad [active] 1104322005632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005633 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322005634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005635 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322005636 HTH-like domain; Region: HTH_21; pfam13276 1104322005637 Integrase core domain; Region: rve; pfam00665 1104322005638 Integrase core domain; Region: rve_2; pfam13333 1104322005639 pyruvate carboxylase; Reviewed; Region: PRK12999 1104322005640 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1104322005641 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1104322005642 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1104322005643 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1104322005644 active site 1104322005645 catalytic residues [active] 1104322005646 metal binding site [ion binding]; metal-binding site 1104322005647 homodimer binding site [polypeptide binding]; other site 1104322005648 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1104322005649 carboxyltransferase (CT) interaction site; other site 1104322005650 biotinylation site [posttranslational modification]; other site 1104322005651 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1104322005652 drug efflux system protein MdtG; Provisional; Region: PRK09874 1104322005653 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322005654 putative substrate translocation pore; other site 1104322005655 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1104322005656 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 1104322005657 CoA-binding site [chemical binding]; other site 1104322005658 ATP-binding [chemical binding]; other site 1104322005659 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322005660 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322005661 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1104322005662 Pyruvate formate lyase 1; Region: PFL1; cd01678 1104322005663 coenzyme A binding site [chemical binding]; other site 1104322005664 active site 1104322005665 catalytic residues [active] 1104322005666 glycine loop; other site 1104322005667 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1104322005668 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1104322005669 Cl binding site [ion binding]; other site 1104322005670 oligomer interface [polypeptide binding]; other site 1104322005671 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1104322005672 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1104322005673 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1104322005674 acyl-activating enzyme (AAE) consensus motif; other site 1104322005675 acyl-activating enzyme (AAE) consensus motif; other site 1104322005676 AMP binding site [chemical binding]; other site 1104322005677 active site 1104322005678 CoA binding site [chemical binding]; other site 1104322005679 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104322005680 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104322005681 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1104322005682 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104322005683 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104322005684 Walker A/P-loop; other site 1104322005685 ATP binding site [chemical binding]; other site 1104322005686 Q-loop/lid; other site 1104322005687 ABC transporter signature motif; other site 1104322005688 Walker B; other site 1104322005689 D-loop; other site 1104322005690 H-loop/switch region; other site 1104322005691 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1104322005692 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 1104322005693 Transposase; Region: HTH_Tnp_1; pfam01527 1104322005694 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005695 Integrase core domain; Region: rve; pfam00665 1104322005696 NUMOD4 motif; Region: NUMOD4; pfam07463 1104322005697 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322005698 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1104322005699 active site 1104322005700 DNA binding site [nucleotide binding] 1104322005701 Int/Topo IB signature motif; other site 1104322005702 enolase; Provisional; Region: eno; PRK00077 1104322005703 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 1104322005704 dimer interface [polypeptide binding]; other site 1104322005705 metal binding site [ion binding]; metal-binding site 1104322005706 substrate binding pocket [chemical binding]; other site 1104322005707 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1104322005708 30S subunit binding site; other site 1104322005709 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1104322005710 Clp amino terminal domain; Region: Clp_N; pfam02861 1104322005711 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322005712 Walker A motif; other site 1104322005713 ATP binding site [chemical binding]; other site 1104322005714 Walker B motif; other site 1104322005715 arginine finger; other site 1104322005716 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322005717 Walker A motif; other site 1104322005718 ATP binding site [chemical binding]; other site 1104322005719 Walker B motif; other site 1104322005720 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1104322005721 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 1104322005722 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005723 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322005724 HTH-like domain; Region: HTH_21; pfam13276 1104322005725 Integrase core domain; Region: rve; pfam00665 1104322005726 Integrase core domain; Region: rve; pfam00665 1104322005727 Integrase core domain; Region: rve_2; pfam13333 1104322005728 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1104322005729 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1104322005730 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1104322005731 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1104322005732 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1104322005733 dimerization interface [polypeptide binding]; other site 1104322005734 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1104322005735 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322005736 active site 1104322005737 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1104322005738 DHH family; Region: DHH; pfam01368 1104322005739 DHHA1 domain; Region: DHHA1; pfam02272 1104322005740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 1104322005741 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1104322005742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322005743 NAD(P) binding site [chemical binding]; other site 1104322005744 active site 1104322005745 ribonuclease Z; Region: RNase_Z; TIGR02651 1104322005746 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322005747 non-specific DNA binding site [nucleotide binding]; other site 1104322005748 salt bridge; other site 1104322005749 sequence-specific DNA binding site [nucleotide binding]; other site 1104322005750 Lactococcus bacteriophage repressor; Region: Lac_bphage_repr; pfam06543 1104322005751 YWTD domain; Region: YWTD; cl17223 1104322005752 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1104322005753 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 1104322005754 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1104322005755 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1104322005756 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1104322005757 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104322005758 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 1104322005759 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1104322005760 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1104322005761 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104322005762 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1104322005763 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1104322005764 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 1104322005765 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 1104322005766 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1104322005767 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1104322005768 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1104322005769 Hpr binding site; other site 1104322005770 active site 1104322005771 homohexamer subunit interaction site [polypeptide binding]; other site 1104322005772 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 1104322005773 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 1104322005774 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322005775 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322005776 MULE transposase domain; Region: MULE; pfam10551 1104322005777 Predicted membrane protein [Function unknown]; Region: COG2246 1104322005778 GtrA-like protein; Region: GtrA; pfam04138 1104322005779 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1104322005780 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 1104322005781 active site 1104322005782 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104322005783 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104322005784 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322005785 putative substrate translocation pore; other site 1104322005786 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322005787 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322005788 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322005789 flavodoxin; Validated; Region: PRK07308 1104322005790 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 1104322005791 dimer interface [polypeptide binding]; other site 1104322005792 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1104322005793 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1104322005794 DNA binding residues [nucleotide binding] 1104322005795 putative dimer interface [polypeptide binding]; other site 1104322005796 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1104322005797 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1104322005798 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1104322005799 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1104322005800 acylphosphatase; Provisional; Region: PRK14434 1104322005801 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1104322005802 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322005803 motif II; other site 1104322005804 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 1104322005805 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1104322005806 putative ligand binding site [chemical binding]; other site 1104322005807 putative NAD binding site [chemical binding]; other site 1104322005808 putative catalytic site [active] 1104322005809 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1104322005810 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1104322005811 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104322005812 catalytic residue [active] 1104322005813 Lysozyme-like; Region: Lysozyme_like; pfam13702 1104322005814 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1104322005815 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1104322005816 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 1104322005817 dimer interface [polypeptide binding]; other site 1104322005818 active site 1104322005819 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1104322005820 folate binding site [chemical binding]; other site 1104322005821 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1104322005822 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104322005823 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1104322005824 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322005825 S-adenosylmethionine binding site [chemical binding]; other site 1104322005826 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1104322005827 dimer interface [polypeptide binding]; other site 1104322005828 FMN binding site [chemical binding]; other site 1104322005829 NADPH bind site [chemical binding]; other site 1104322005830 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1104322005831 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1104322005832 RF-1 domain; Region: RF-1; pfam00472 1104322005833 thymidine kinase; Provisional; Region: PRK04296 1104322005834 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1104322005835 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1104322005836 Int/Topo IB signature motif; other site 1104322005837 Replication initiation factor; Region: Rep_trans; pfam02486 1104322005838 potential frameshift: common BLAST hit: gi|281491098|ref|YP_003353078.1| FtsK/SpoIIIE family DNA segregation ATPase 1104322005839 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1104322005840 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1104322005841 nudix motif; other site 1104322005842 Transposase; Region: HTH_Tnp_1; pfam01527 1104322005843 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322005844 putative transposase OrfB; Reviewed; Region: PHA02517 1104322005845 HTH-like domain; Region: HTH_21; pfam13276 1104322005846 Integrase core domain; Region: rve; pfam00665 1104322005847 Integrase core domain; Region: rve_3; pfam13683 1104322005848 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104322005849 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 1104322005850 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322005851 motif II; other site 1104322005852 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1104322005853 active site 1 [active] 1104322005854 dimer interface [polypeptide binding]; other site 1104322005855 hexamer interface [polypeptide binding]; other site 1104322005856 active site 2 [active] 1104322005857 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 1104322005858 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 1104322005859 Flavoprotein; Region: Flavoprotein; pfam02441 1104322005860 Predicted membrane protein [Function unknown]; Region: COG4684 1104322005861 Eukaryotic phosphomannomutase; Region: PMM; cl17107 1104322005862 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1104322005863 OxaA-like protein precursor; Provisional; Region: PRK02463 1104322005864 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1104322005865 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 1104322005866 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1104322005867 NAD binding site [chemical binding]; other site 1104322005868 homotetramer interface [polypeptide binding]; other site 1104322005869 homodimer interface [polypeptide binding]; other site 1104322005870 substrate binding site [chemical binding]; other site 1104322005871 active site 1104322005872 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 1104322005873 potential frameshift: common BLAST hit: gi|125623403|ref|YP_001031886.1| acetylornithine deacetylase 1104322005874 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1104322005875 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1104322005876 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1104322005877 metal binding site [ion binding]; metal-binding site 1104322005878 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1104322005879 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104322005880 substrate binding pocket [chemical binding]; other site 1104322005881 membrane-bound complex binding site; other site 1104322005882 hinge residues; other site 1104322005883 excinuclease ABC subunit B; Provisional; Region: PRK05298 1104322005884 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1104322005885 ATP binding site [chemical binding]; other site 1104322005886 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1104322005887 nucleotide binding region [chemical binding]; other site 1104322005888 ATP-binding site [chemical binding]; other site 1104322005889 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1104322005890 UvrB/uvrC motif; Region: UVR; pfam02151 1104322005891 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1104322005892 putative active site [active] 1104322005893 Ap4A binding site [chemical binding]; other site 1104322005894 nudix motif; other site 1104322005895 putative metal binding site [ion binding]; other site 1104322005896 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 1104322005897 active site 1104322005898 catalytic residues [active] 1104322005899 metal binding site [ion binding]; metal-binding site 1104322005900 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1104322005901 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1104322005902 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1104322005903 Predicted transcriptional regulator [Transcription]; Region: COG1959 1104322005904 Transcriptional regulator; Region: Rrf2; pfam02082 1104322005905 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322005906 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1104322005907 Walker A motif; other site 1104322005908 ATP binding site [chemical binding]; other site 1104322005909 Walker B motif; other site 1104322005910 arginine finger; other site 1104322005911 UvrB/uvrC motif; Region: UVR; pfam02151 1104322005912 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322005913 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1104322005914 Walker A motif; other site 1104322005915 ATP binding site [chemical binding]; other site 1104322005916 Walker B motif; other site 1104322005917 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1104322005918 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1104322005919 Double zinc ribbon; Region: DZR; pfam12773 1104322005920 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1104322005921 Double zinc ribbon; Region: DZR; pfam12773 1104322005922 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 1104322005923 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322005924 putative substrate translocation pore; other site 1104322005925 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322005926 potential frameshift: common BLAST hit: gi|125623389|ref|YP_001031872.1| transcriptional regulator 1104322005927 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104322005928 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104322005929 putative active site [active] 1104322005930 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104322005931 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104322005932 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1104322005933 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1104322005934 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1104322005935 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1104322005936 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1104322005937 DNA binding residues [nucleotide binding] 1104322005938 DNA primase, catalytic core; Region: dnaG; TIGR01391 1104322005939 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1104322005940 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1104322005941 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 1104322005942 active site 1104322005943 metal binding site [ion binding]; metal-binding site 1104322005944 interdomain interaction site; other site 1104322005945 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1104322005946 trigger factor; Provisional; Region: tig; PRK01490 1104322005947 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1104322005948 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1104322005949 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1104322005950 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 1104322005951 hinge; other site 1104322005952 active site 1104322005953 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1104322005954 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1104322005955 active site 1104322005956 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 1104322005957 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 1104322005958 ArsC family; Region: ArsC; pfam03960 1104322005959 putative catalytic residues [active] 1104322005960 thiol/disulfide switch; other site 1104322005961 hypothetical protein; Provisional; Region: PRK13660 1104322005962 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1104322005963 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1104322005964 Transglycosylase; Region: Transgly; pfam00912 1104322005965 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1104322005966 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1104322005967 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1104322005968 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104322005969 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104322005970 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1104322005971 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1104322005972 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1104322005973 dimer interface [polypeptide binding]; other site 1104322005974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322005975 catalytic residue [active] 1104322005976 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1104322005977 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1104322005978 peptide binding site [polypeptide binding]; other site 1104322005979 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1104322005980 NlpC/P60 family; Region: NLPC_P60; cl17555 1104322005981 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1104322005982 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1104322005983 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104322005984 catalytic residue [active] 1104322005985 LytTr DNA-binding domain; Region: LytTR; smart00850 1104322005986 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322005987 MULE transposase domain; Region: MULE; pfam10551 1104322005988 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1104322005989 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1104322005990 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1104322005991 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104322005992 Walker A/P-loop; other site 1104322005993 ATP binding site [chemical binding]; other site 1104322005994 Q-loop/lid; other site 1104322005995 ABC transporter signature motif; other site 1104322005996 Walker B; other site 1104322005997 D-loop; other site 1104322005998 H-loop/switch region; other site 1104322005999 N-acetyltransferase; Region: Acetyltransf_2; cl00949 1104322006000 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104322006001 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1104322006002 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1104322006003 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1104322006004 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1104322006005 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1104322006006 DNA binding site [nucleotide binding] 1104322006007 active site 1104322006008 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1104322006009 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322006010 Coenzyme A binding pocket [chemical binding]; other site 1104322006011 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1104322006012 IHF dimer interface [polypeptide binding]; other site 1104322006013 IHF - DNA interface [nucleotide binding]; other site 1104322006014 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 1104322006015 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1104322006016 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1104322006017 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_YpmR_like; cd04506 1104322006018 active site 1104322006019 catalytic triad [active] 1104322006020 oxyanion hole [active] 1104322006021 EDD domain protein, DegV family; Region: DegV; TIGR00762 1104322006022 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1104322006023 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1104322006024 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1104322006025 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 1104322006026 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1104322006027 active site 1104322006028 PHP Thumb interface [polypeptide binding]; other site 1104322006029 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1104322006030 generic binding surface II; other site 1104322006031 generic binding surface I; other site 1104322006032 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 1104322006033 putative active site [active] 1104322006034 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 1104322006035 putative active site [active] 1104322006036 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322006037 MULE transposase domain; Region: MULE; pfam10551 1104322006038 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1104322006039 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1104322006040 Substrate-binding site [chemical binding]; other site 1104322006041 Substrate specificity [chemical binding]; other site 1104322006042 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 1104322006043 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1104322006044 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 1104322006045 Predicted membrane protein [Function unknown]; Region: COG4420 1104322006046 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1104322006047 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1104322006048 NAD(P) binding site [chemical binding]; other site 1104322006049 LDH/MDH dimer interface [polypeptide binding]; other site 1104322006050 substrate binding site [chemical binding]; other site 1104322006051 Domain of unknown function (DUF4288); Region: DUF4288; pfam14119 1104322006052 CTP synthetase; Validated; Region: pyrG; PRK05380 1104322006053 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 1104322006054 Catalytic site [active] 1104322006055 active site 1104322006056 UTP binding site [chemical binding]; other site 1104322006057 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1104322006058 active site 1104322006059 putative oxyanion hole; other site 1104322006060 catalytic triad [active] 1104322006061 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1104322006062 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1104322006063 catalytic residue [active] 1104322006064 hypothetical protein; Provisional; Region: PRK13690 1104322006065 Predicted membrane protein [Function unknown]; Region: COG4720 1104322006066 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1104322006067 ATP binding site [chemical binding]; other site 1104322006068 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1104322006069 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1104322006070 dimerization interface 3.5A [polypeptide binding]; other site 1104322006071 active site 1104322006072 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 1104322006073 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322006074 MULE transposase domain; Region: MULE; pfam10551 1104322006075 LysA is a cell wall endolysin produced by Lactobacillus fermentum, which degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. The N-terminal glycosyl hydrolase...; Region: GH25_LysA-like; cd06417 1104322006076 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1104322006077 active site 1104322006078 phage holin, LL-H family; Region: holin_LLH; TIGR01673 1104322006079 potential frameshift: common BLAST hit: gi|281491554|ref|YP_003353534.1| phage tail component 1104322006080 Phage tail protein; Region: Sipho_tail; cl17486 1104322006081 Phage tail protein; Region: Sipho_tail; pfam05709 1104322006082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1104322006083 Integrase core domain; Region: rve; pfam00665 1104322006084 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322006085 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1104322006086 Walker A motif; other site 1104322006087 ATP binding site [chemical binding]; other site 1104322006088 Walker B motif; other site 1104322006089 arginine finger; other site 1104322006090 Phage-related tail protein [Function unknown]; Region: COG5283 1104322006091 tape measure domain; Region: tape_meas_nterm; TIGR02675 1104322006092 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1104322006093 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1104322006094 catalytic residue [active] 1104322006095 Protein of unknown function (DUF1268); Region: DUF1268; pfam06896 1104322006096 Phage major tail protein; Region: Phage_tail; pfam04630 1104322006097 Protein of unknown function (DUF806); Region: DUF806; pfam05657 1104322006098 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 1104322006099 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1104322006100 Phage gp6-like head-tail connector protein; Region: Phage_connect_1; pfam05135 1104322006101 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1104322006102 Phage capsid family; Region: Phage_capsid; pfam05065 1104322006103 Phage head maturation protease [General function prediction only]; Region: COG3740 1104322006104 Phage-related protein [Function unknown]; Region: COG4695 1104322006105 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 1104322006106 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1104322006107 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: COG3747 1104322006108 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1104322006109 Protein of unknown function (DUF722); Region: DUF722; pfam05263 1104322006110 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1104322006111 Integrase core domain; Region: rve; pfam00665 1104322006112 Integrase core domain; Region: rve_3; pfam13683 1104322006113 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1104322006114 trimer interface [polypeptide binding]; other site 1104322006115 active site 1104322006116 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 1104322006117 Protein of unknown function (DUF1125); Region: DUF1125; pfam06563 1104322006118 Protein of unknown function (DUF658); Region: DUF658; pfam04936 1104322006119 Protein of unknown function (DUF1031); Region: DUF1031; pfam06275 1104322006120 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 1104322006121 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1104322006122 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104322006123 putative DNA binding site [nucleotide binding]; other site 1104322006124 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 1104322006125 RecT family; Region: RecT; pfam03837 1104322006126 putative transcription regulator; Provisional; Region: PHA02503 1104322006127 Protein of unknown function (DUF1408); Region: DUF1408; pfam07193 1104322006128 Prophage antirepressor [Transcription]; Region: COG3617 1104322006129 BRO family, N-terminal domain; Region: Bro-N; smart01040 1104322006130 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1104322006131 Protein of unknown function (DUF739); Region: DUF739; pfam05339 1104322006132 Domain of unknown function (DUF955); Region: DUF955; cl01076 1104322006133 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1104322006134 Int/Topo IB signature motif; other site 1104322006135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1104322006136 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1104322006137 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1104322006138 putative active site [active] 1104322006139 substrate binding site [chemical binding]; other site 1104322006140 putative cosubstrate binding site; other site 1104322006141 catalytic site [active] 1104322006142 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1104322006143 substrate binding site [chemical binding]; other site 1104322006144 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1104322006145 dimer interface [polypeptide binding]; other site 1104322006146 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 1104322006147 nudix motif; other site 1104322006148 SnoaL-like domain; Region: SnoaL_2; pfam12680 1104322006149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1104322006150 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1104322006151 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1104322006152 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1104322006153 ATP binding site [chemical binding]; other site 1104322006154 putative Mg++ binding site [ion binding]; other site 1104322006155 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1104322006156 nucleotide binding region [chemical binding]; other site 1104322006157 ATP-binding site [chemical binding]; other site 1104322006158 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1104322006159 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1104322006160 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 1104322006161 catalytic site [active] 1104322006162 G-X2-G-X-G-K; other site 1104322006163 phosphodiesterase; Provisional; Region: PRK12704 1104322006164 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1104322006165 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104322006166 Zn2+ binding site [ion binding]; other site 1104322006167 Mg2+ binding site [ion binding]; other site 1104322006168 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1104322006169 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1104322006170 active site 1104322006171 trimer interface [polypeptide binding]; other site 1104322006172 allosteric site; other site 1104322006173 active site lid [active] 1104322006174 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1104322006175 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1104322006176 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1104322006177 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1104322006178 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1104322006179 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322006180 S-adenosylmethionine binding site [chemical binding]; other site 1104322006181 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1104322006182 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1104322006183 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1104322006184 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 1104322006185 PspC domain; Region: PspC; cl00864 1104322006186 Uncharacterized conserved protein [Function unknown]; Region: COG3595 1104322006187 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1104322006188 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 1104322006189 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1104322006190 CHAP domain; Region: CHAP; pfam05257 1104322006191 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1104322006192 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1104322006193 intersubunit interface [polypeptide binding]; other site 1104322006194 active site 1104322006195 zinc binding site [ion binding]; other site 1104322006196 Na+ binding site [ion binding]; other site 1104322006197 Predicted membrane protein [Function unknown]; Region: COG2860 1104322006198 UPF0126 domain; Region: UPF0126; pfam03458 1104322006199 UPF0126 domain; Region: UPF0126; pfam03458 1104322006200 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1104322006201 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1104322006202 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1104322006203 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 1104322006204 active site 1104322006205 dimer interface [polypeptide binding]; other site 1104322006206 motif 1; other site 1104322006207 motif 2; other site 1104322006208 motif 3; other site 1104322006209 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 1104322006210 anticodon binding site; other site 1104322006211 ATP cone domain; Region: ATP-cone; pfam03477 1104322006212 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1104322006213 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1104322006214 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1104322006215 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 1104322006216 dimer interface [polypeptide binding]; other site 1104322006217 FMN binding site [chemical binding]; other site 1104322006218 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322006219 active site 1104322006220 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1104322006221 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1104322006222 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1104322006223 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1104322006224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322006225 homodimer interface [polypeptide binding]; other site 1104322006226 catalytic residue [active] 1104322006227 cystathionine gamma-synthase; Reviewed; Region: PRK07269 1104322006228 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1104322006229 homodimer interface [polypeptide binding]; other site 1104322006230 substrate-cofactor binding pocket; other site 1104322006231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322006232 catalytic residue [active] 1104322006233 potential frameshift: common BLAST hit: gi|125624949|ref|YP_001033432.1| homoserine O-succinyltransferase 1104322006234 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 1104322006235 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1104322006236 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1104322006237 conserved cys residue [active] 1104322006238 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 1104322006239 nudix motif; other site 1104322006240 potential frameshift: common BLAST hit: gi|281492534|ref|YP_003354514.1| permease 1104322006241 Membrane transport protein; Region: Mem_trans; cl09117 1104322006242 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1104322006243 active site 1104322006244 catalytic residues [active] 1104322006245 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 1104322006246 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 1104322006247 generic binding surface II; other site 1104322006248 generic binding surface I; other site 1104322006249 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1104322006250 Zn2+ binding site [ion binding]; other site 1104322006251 Mg2+ binding site [ion binding]; other site 1104322006252 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1104322006253 RmuC family; Region: RmuC; pfam02646 1104322006254 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1104322006255 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 1104322006256 substrate binding site [chemical binding]; other site 1104322006257 hexamer interface [polypeptide binding]; other site 1104322006258 metal binding site [ion binding]; metal-binding site 1104322006259 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 1104322006260 RNA binding site [nucleotide binding]; other site 1104322006261 homodimer interface [polypeptide binding]; other site 1104322006262 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1104322006263 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1104322006264 GTP/Mg2+ binding site [chemical binding]; other site 1104322006265 G4 box; other site 1104322006266 G1 box; other site 1104322006267 Switch I region; other site 1104322006268 G2 box; other site 1104322006269 G3 box; other site 1104322006270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1104322006271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1104322006272 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1104322006273 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 1104322006274 putative tRNA-binding site [nucleotide binding]; other site 1104322006275 B3/4 domain; Region: B3_4; pfam03483 1104322006276 tRNA synthetase B5 domain; Region: B5; smart00874 1104322006277 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 1104322006278 dimer interface [polypeptide binding]; other site 1104322006279 motif 1; other site 1104322006280 motif 3; other site 1104322006281 motif 2; other site 1104322006282 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1104322006283 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1104322006284 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1104322006285 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 1104322006286 dimer interface [polypeptide binding]; other site 1104322006287 motif 1; other site 1104322006288 active site 1104322006289 motif 2; other site 1104322006290 motif 3; other site 1104322006291 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 1104322006292 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322006293 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322006294 Predicted transcriptional regulators [Transcription]; Region: COG1695 1104322006295 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1104322006296 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1104322006297 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 1104322006298 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 1104322006299 putative active site [active] 1104322006300 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 1104322006301 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1104322006302 Interdomain contacts; other site 1104322006303 Cytokine receptor motif; other site 1104322006304 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1104322006305 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1104322006306 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 1104322006307 GDP-binding site [chemical binding]; other site 1104322006308 ACT binding site; other site 1104322006309 IMP binding site; other site 1104322006310 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 1104322006311 Cadmium resistance transporter; Region: Cad; pfam03596 1104322006312 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1104322006313 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1104322006314 dimerization interface [polypeptide binding]; other site 1104322006315 domain crossover interface; other site 1104322006316 redox-dependent activation switch; other site 1104322006317 potential frameshift: common BLAST hit: gi|281492558|ref|YP_003354538.1| dihydrofolate reductase family protein 1104322006318 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1104322006319 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl17426 1104322006320 NADP+ binding site [chemical binding]; other site 1104322006321 folate binding site [chemical binding]; other site 1104322006322 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322006323 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322006324 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1104322006325 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1104322006326 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1104322006327 FMN binding site [chemical binding]; other site 1104322006328 active site 1104322006329 catalytic residues [active] 1104322006330 substrate binding site [chemical binding]; other site 1104322006331 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104322006332 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104322006333 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104322006334 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1104322006335 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104322006336 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104322006337 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104322006338 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1104322006339 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1104322006340 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104322006341 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1104322006342 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1104322006343 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1104322006344 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 1104322006345 dimer interface [polypeptide binding]; other site 1104322006346 anticodon binding site; other site 1104322006347 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1104322006348 homodimer interface [polypeptide binding]; other site 1104322006349 motif 1; other site 1104322006350 active site 1104322006351 motif 2; other site 1104322006352 GAD domain; Region: GAD; pfam02938 1104322006353 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1104322006354 active site 1104322006355 motif 3; other site 1104322006356 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1104322006357 nucleotide binding site/active site [active] 1104322006358 HIT family signature motif; other site 1104322006359 catalytic residue [active] 1104322006360 histidyl-tRNA synthetase; Region: hisS; TIGR00442 1104322006361 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1104322006362 dimer interface [polypeptide binding]; other site 1104322006363 motif 1; other site 1104322006364 active site 1104322006365 motif 2; other site 1104322006366 motif 3; other site 1104322006367 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1104322006368 anticodon binding site; other site 1104322006369 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322006370 salt bridge; other site 1104322006371 non-specific DNA binding site [nucleotide binding]; other site 1104322006372 sequence-specific DNA binding site [nucleotide binding]; other site 1104322006373 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1104322006374 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1104322006375 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1104322006376 Helix-turn-helix domain; Region: HTH_25; pfam13413 1104322006377 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104322006378 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1104322006379 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1104322006380 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1104322006381 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1104322006382 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 1104322006383 recF protein; Region: recf; TIGR00611 1104322006384 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1104322006385 Walker A/P-loop; other site 1104322006386 ATP binding site [chemical binding]; other site 1104322006387 Q-loop/lid; other site 1104322006388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322006389 ABC transporter signature motif; other site 1104322006390 Walker B; other site 1104322006391 D-loop; other site 1104322006392 H-loop/switch region; other site 1104322006393 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1104322006394 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1104322006395 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1104322006396 DNA binding residues [nucleotide binding] 1104322006397 putative dimer interface [polypeptide binding]; other site 1104322006398 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1104322006399 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1104322006400 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1104322006401 NAD binding site [chemical binding]; other site 1104322006402 homodimer interface [polypeptide binding]; other site 1104322006403 active site 1104322006404 substrate binding site [chemical binding]; other site 1104322006405 galactose-1-phosphate uridylyltransferase, family 2; Region: galT_2; TIGR01239 1104322006406 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1104322006407 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1104322006408 potential frameshift: common BLAST hit: gi|116512906|ref|YP_811813.1| galactokinase 1104322006409 galactokinase; Provisional; Region: PRK05322 1104322006410 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1104322006411 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1104322006412 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1104322006413 active site 1104322006414 catalytic residues [active] 1104322006415 potential frameshift: common BLAST hit: gi|116512908|ref|YP_811815.1| Na+/xyloside symporter related transporter 1104322006416 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1104322006417 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1104322006418 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104322006419 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104322006420 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104322006421 putative active site [active] 1104322006422 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1104322006423 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1104322006424 active site 1104322006425 catalytic tetrad [active] 1104322006426 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 1104322006427 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 1104322006428 active site 1104322006429 (T/H)XGH motif; other site 1104322006430 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1104322006431 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1104322006432 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1104322006433 NAD binding site [chemical binding]; other site 1104322006434 ligand binding site [chemical binding]; other site 1104322006435 catalytic site [active] 1104322006436 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1104322006437 Peptidase family U32; Region: Peptidase_U32; pfam01136 1104322006438 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1104322006439 Peptidase family U32; Region: Peptidase_U32; pfam01136 1104322006440 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 1104322006441 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1104322006442 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1104322006443 Protein of unknown function (DUF722); Region: DUF722; pfam05263 1104322006444 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 1104322006445 Phage associated DNA primase [General function prediction only]; Region: COG3378 1104322006446 D5 N terminal like; Region: D5_N; smart00885 1104322006447 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1104322006448 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 1104322006449 polymerase nucleotide-binding site; other site 1104322006450 DNA-binding residues [nucleotide binding]; DNA binding site 1104322006451 nucleotide binding site [chemical binding]; other site 1104322006452 primase nucleotide-binding site [nucleotide binding]; other site 1104322006453 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 1104322006454 Protein of unknown function (DUF1655); Region: DUF1655; pfam07868 1104322006455 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104322006456 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322006457 non-specific DNA binding site [nucleotide binding]; other site 1104322006458 salt bridge; other site 1104322006459 sequence-specific DNA binding site [nucleotide binding]; other site 1104322006460 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1104322006461 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1104322006462 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1104322006463 Divergent AAA domain; Region: AAA_4; pfam04326 1104322006464 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1104322006465 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1104322006466 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1104322006467 Int/Topo IB signature motif; other site 1104322006468 CutC family; Region: CutC; pfam03932 1104322006469 Predicted ABC-type exoprotein transport system, permease component [Intracellular trafficking and secretion]; Region: EcsB; COG4473 1104322006470 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1104322006471 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1104322006472 Walker A/P-loop; other site 1104322006473 ATP binding site [chemical binding]; other site 1104322006474 Q-loop/lid; other site 1104322006475 ABC transporter signature motif; other site 1104322006476 Walker B; other site 1104322006477 D-loop; other site 1104322006478 H-loop/switch region; other site 1104322006479 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 1104322006480 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1104322006481 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 1104322006482 putative active site [active] 1104322006483 catalytic site [active] 1104322006484 putative metal binding site [ion binding]; other site 1104322006485 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322006486 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322006487 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1104322006488 HIT family signature motif; other site 1104322006489 catalytic residue [active] 1104322006490 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 1104322006491 mRNA/rRNA interface [nucleotide binding]; other site 1104322006492 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1104322006493 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 1104322006494 23S rRNA interface [nucleotide binding]; other site 1104322006495 L7/L12 interface [polypeptide binding]; other site 1104322006496 putative thiostrepton binding site; other site 1104322006497 L25 interface [polypeptide binding]; other site 1104322006498 potential frameshift: common BLAST hit: gi|125625044|ref|YP_001033527.1| bacitracin transport ATP-binding protein 1104322006499 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322006500 ABC transporter signature motif; other site 1104322006501 Walker B; other site 1104322006502 D-loop; other site 1104322006503 H-loop/switch region; other site 1104322006504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1104322006505 Walker A/P-loop; other site 1104322006506 ATP binding site [chemical binding]; other site 1104322006507 Q-loop/lid; other site 1104322006508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4479 1104322006509 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1104322006510 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1104322006511 S1 domain; Region: S1_2; pfam13509 1104322006512 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1104322006513 RNA binding site [nucleotide binding]; other site 1104322006514 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1104322006515 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1104322006516 Coenzyme A binding pocket [chemical binding]; other site 1104322006517 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1104322006518 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1104322006519 hinge region; other site 1104322006520 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 1104322006521 putative nucleotide binding site [chemical binding]; other site 1104322006522 uridine monophosphate binding site [chemical binding]; other site 1104322006523 homohexameric interface [polypeptide binding]; other site 1104322006524 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1104322006525 propionate/acetate kinase; Provisional; Region: PRK12379 1104322006526 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1104322006527 propionate/acetate kinase; Provisional; Region: PRK12379 1104322006528 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1104322006529 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1104322006530 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1104322006531 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1104322006532 putative GEF interaction site [polypeptide binding]; other site 1104322006533 Switch I region; other site 1104322006534 G2 box; other site 1104322006535 G3 box; other site 1104322006536 Switch II region; other site 1104322006537 GTP/Mg2+ binding site [chemical binding]; other site 1104322006538 G4 box; other site 1104322006539 G5 box; other site 1104322006540 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 1104322006541 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 1104322006542 putative transposase OrfB; Reviewed; Region: PHA02517 1104322006543 HTH-like domain; Region: HTH_21; pfam13276 1104322006544 Integrase core domain; Region: rve; pfam00665 1104322006545 Integrase core domain; Region: rve_3; pfam13683 1104322006546 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322006547 Transposase; Region: HTH_Tnp_1; pfam01527 1104322006548 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322006549 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322006550 LytTr DNA-binding domain; Region: LytTR; cl04498 1104322006551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4483 1104322006552 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1104322006553 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104322006554 nucleotide binding site [chemical binding]; other site 1104322006555 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1104322006556 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1104322006557 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1104322006558 dimerization interface [polypeptide binding]; other site 1104322006559 DPS ferroxidase diiron center [ion binding]; other site 1104322006560 ion pore; other site 1104322006561 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1104322006562 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1104322006563 DNA polymerase IV; Validated; Region: PRK02406 1104322006564 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1104322006565 active site 1104322006566 DNA binding site [nucleotide binding] 1104322006567 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 1104322006568 putative deacylase active site [active] 1104322006569 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1104322006570 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322006571 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322006572 potential frameshift: common BLAST hit: gi|125625070|ref|YP_001033553.1| transaminase 1104322006573 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1104322006574 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1104322006575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322006576 homodimer interface [polypeptide binding]; other site 1104322006577 catalytic residue [active] 1104322006578 carbamate kinase; Reviewed; Region: PRK12686 1104322006579 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1104322006580 putative substrate binding site [chemical binding]; other site 1104322006581 nucleotide binding site [chemical binding]; other site 1104322006582 nucleotide binding site [chemical binding]; other site 1104322006583 homodimer interface [polypeptide binding]; other site 1104322006584 carbamate kinase; Reviewed; Region: PRK12686 1104322006585 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1104322006586 putative substrate binding site [chemical binding]; other site 1104322006587 nucleotide binding site [chemical binding]; other site 1104322006588 nucleotide binding site [chemical binding]; other site 1104322006589 homodimer interface [polypeptide binding]; other site 1104322006590 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1104322006591 ornithine carbamoyltransferase; Validated; Region: PRK02102 1104322006592 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1104322006593 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1104322006594 arginine deiminase; Provisional; Region: PRK01388 1104322006595 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1104322006596 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1104322006597 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1104322006598 active site 1104322006599 HIGH motif; other site 1104322006600 KMSK motif region; other site 1104322006601 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1104322006602 tRNA binding surface [nucleotide binding]; other site 1104322006603 anticodon binding site; other site 1104322006604 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1104322006605 arginine repressor; Region: argR_whole; TIGR01529 1104322006606 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1104322006607 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1104322006608 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1104322006609 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1104322006610 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1104322006611 SWIM zinc finger; Region: SWIM; pfam04434 1104322006612 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1104322006613 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1104322006614 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1104322006615 ATP binding site [chemical binding]; other site 1104322006616 putative Mg++ binding site [ion binding]; other site 1104322006617 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1104322006618 nucleotide binding region [chemical binding]; other site 1104322006619 ATP-binding site [chemical binding]; other site 1104322006620 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322006621 active site 1104322006622 Int/Topo IB signature motif; other site 1104322006623 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322006624 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322006625 GA module; Region: GA; cl08325 1104322006626 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1104322006627 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322006628 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322006629 potential frameshift: common BLAST hit: gi|281492652|ref|YP_003354632.1| conjugal transfer protein 1104322006630 AAA-like domain; Region: AAA_10; pfam12846 1104322006631 AAA-like domain; Region: AAA_10; pfam12846 1104322006632 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1104322006633 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1104322006634 MAP7 (E-MAP-115) family; Region: MAP7; pfam05672 1104322006635 CHAP domain; Region: CHAP; pfam05257 1104322006636 Antirestriction protein (ArdA); Region: ArdA; cl01953 1104322006637 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322006638 Transposase; Region: HTH_Tnp_1; pfam01527 1104322006639 putative transposase OrfB; Reviewed; Region: PHA02517 1104322006640 HTH-like domain; Region: HTH_21; pfam13276 1104322006641 Integrase core domain; Region: rve; pfam00665 1104322006642 Integrase core domain; Region: rve_3; pfam13683 1104322006643 potential frameshift: common BLAST hit: gi|125625082|ref|YP_001033565.1| pyruvate oxidase 1104322006644 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104322006645 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1104322006646 TPP-binding site [chemical binding]; other site 1104322006647 potential frameshift: common BLAST hit: gi|125625082|ref|YP_001033565.1| pyruvate oxidase 1104322006648 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1104322006649 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1104322006650 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1104322006651 PYR/PP interface [polypeptide binding]; other site 1104322006652 TPP binding site [chemical binding]; other site 1104322006653 dimer interface [polypeptide binding]; other site 1104322006654 Beta-lactamase; Region: Beta-lactamase; pfam00144 1104322006655 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1104322006656 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1104322006657 Domain of unknown function (DU1801); Region: DUF1801; cl17490 1104322006658 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1104322006659 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322006660 MULE transposase domain; Region: MULE; pfam10551 1104322006661 CAAX protease self-immunity; Region: Abi; pfam02517 1104322006662 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1104322006663 amphipathic channel; other site 1104322006664 Asn-Pro-Ala signature motifs; other site 1104322006665 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 1104322006666 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 1104322006667 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1104322006668 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1104322006669 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1104322006670 catalytic triad [active] 1104322006671 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1104322006672 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1104322006673 substrate binding pocket [chemical binding]; other site 1104322006674 membrane-bound complex binding site; other site 1104322006675 hinge residues; other site 1104322006676 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1104322006677 TrkA-N domain; Region: TrkA_N; pfam02254 1104322006678 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104322006679 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104322006680 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1104322006681 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1104322006682 active site 1104322006683 HIGH motif; other site 1104322006684 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1104322006685 active site 1104322006686 KMSKS motif; other site 1104322006687 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1104322006688 Isochorismatase family; Region: Isochorismatase; pfam00857 1104322006689 catalytic triad [active] 1104322006690 conserved cis-peptide bond; other site 1104322006691 Isochorismatase family; Region: Isochorismatase; pfam00857 1104322006692 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1104322006693 catalytic triad [active] 1104322006694 conserved cis-peptide bond; other site 1104322006695 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1104322006696 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1104322006697 potential frameshift: common BLAST hit: gi|281492712|ref|YP_003354692.1| PAP2 family membrane-associated phospholipid phosphatase 1104322006698 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 1104322006699 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1104322006700 active site 1104322006701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1104322006702 DNA-binding ferritin-like protein (Dps family) [General function prediction only]; Region: COG4817 1104322006703 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 1104322006704 Predicted transcriptional regulators [Transcription]; Region: COG1695 1104322006705 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1104322006706 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1104322006707 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1104322006708 putative active site [active] 1104322006709 Predicted membrane protein [Function unknown]; Region: COG3619 1104322006710 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322006711 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322006712 DNA repair protein RadA; Provisional; Region: PRK11823 1104322006713 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1104322006714 Walker A motif/ATP binding site; other site 1104322006715 ATP binding site [chemical binding]; other site 1104322006716 Walker B motif; other site 1104322006717 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1104322006718 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104322006719 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1104322006720 active site 1104322006721 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 1104322006722 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322006723 active site 1104322006724 motif I; other site 1104322006725 motif II; other site 1104322006726 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104322006727 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1104322006728 dimer interface [polypeptide binding]; other site 1104322006729 active site 1104322006730 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 1104322006731 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1104322006732 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 1104322006733 GDP-Fucose binding site [chemical binding]; other site 1104322006734 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1104322006735 active site 1104322006736 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1104322006737 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1104322006738 active site 1104322006739 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1104322006740 potential frameshift: common BLAST hit: gi|116513025|ref|YP_811932.1| UDP-N-acetylmuramoylpentapeptide-lysine N(6)-alanyltransferase 1104322006741 FemAB family; Region: FemAB; pfam02388 1104322006742 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1104322006743 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1104322006744 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1104322006745 alphaNTD homodimer interface [polypeptide binding]; other site 1104322006746 alphaNTD - beta interaction site [polypeptide binding]; other site 1104322006747 alphaNTD - beta' interaction site [polypeptide binding]; other site 1104322006748 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1104322006749 30S ribosomal protein S11; Validated; Region: PRK05309 1104322006750 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1104322006751 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1104322006752 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 1104322006753 rRNA binding site [nucleotide binding]; other site 1104322006754 predicted 30S ribosome binding site; other site 1104322006755 adenylate kinase; Reviewed; Region: adk; PRK00279 1104322006756 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 1104322006757 AMP-binding site [chemical binding]; other site 1104322006758 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1104322006759 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1104322006760 SecY translocase; Region: SecY; pfam00344 1104322006761 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1104322006762 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1104322006763 23S rRNA binding site [nucleotide binding]; other site 1104322006764 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1104322006765 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1104322006766 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1104322006767 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 1104322006768 5S rRNA interface [nucleotide binding]; other site 1104322006769 L27 interface [polypeptide binding]; other site 1104322006770 23S rRNA interface [nucleotide binding]; other site 1104322006771 L5 interface [polypeptide binding]; other site 1104322006772 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1104322006773 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1104322006774 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1104322006775 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1104322006776 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1104322006777 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1104322006778 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1104322006779 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1104322006780 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1104322006781 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1104322006782 RNA binding site [nucleotide binding]; other site 1104322006783 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1104322006784 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1104322006785 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 1104322006786 23S rRNA interface [nucleotide binding]; other site 1104322006787 putative translocon interaction site; other site 1104322006788 signal recognition particle (SRP54) interaction site; other site 1104322006789 L23 interface [polypeptide binding]; other site 1104322006790 trigger factor interaction site; other site 1104322006791 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 1104322006792 23S rRNA interface [nucleotide binding]; other site 1104322006793 5S rRNA interface [nucleotide binding]; other site 1104322006794 putative antibiotic binding site [chemical binding]; other site 1104322006795 L25 interface [polypeptide binding]; other site 1104322006796 L27 interface [polypeptide binding]; other site 1104322006797 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1104322006798 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 1104322006799 G-X-X-G motif; other site 1104322006800 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1104322006801 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 1104322006802 putative translocon binding site; other site 1104322006803 protein-rRNA interface [nucleotide binding]; other site 1104322006804 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1104322006805 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1104322006806 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1104322006807 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1104322006808 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1104322006809 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1104322006810 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1104322006811 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1104322006812 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1104322006813 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1104322006814 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1104322006815 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1104322006816 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1104322006817 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1104322006818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1104322006819 catalytic residue [active] 1104322006820 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1104322006821 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1104322006822 putative homodimer interface [polypeptide binding]; other site 1104322006823 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1104322006824 heterodimer interface [polypeptide binding]; other site 1104322006825 homodimer interface [polypeptide binding]; other site 1104322006826 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 1104322006827 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1104322006828 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 1104322006829 catalytic triad [active] 1104322006830 catalytic triad [active] 1104322006831 oxyanion hole [active] 1104322006832 Transglycosylase; Region: Transgly; pfam00912 1104322006833 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1104322006834 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1104322006835 Predicted membrane protein [Function unknown]; Region: COG2323 1104322006836 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 1104322006837 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1104322006838 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1104322006839 active site 1104322006840 HTH-like domain; Region: HTH_21; pfam13276 1104322006841 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1104322006842 Integrase core domain; Region: rve; pfam00665 1104322006843 Integrase core domain; Region: rve_2; pfam13333 1104322006844 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322006845 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322006846 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322006847 Transposase; Region: HTH_Tnp_1; cl17663 1104322006848 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1104322006849 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1104322006850 ABC-ATPase subunit interface; other site 1104322006851 dimer interface [polypeptide binding]; other site 1104322006852 putative PBP binding regions; other site 1104322006853 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1104322006854 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1104322006855 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1104322006856 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1104322006857 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 1104322006858 metal binding site [ion binding]; metal-binding site 1104322006859 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1104322006860 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104322006861 putative DNA binding site [nucleotide binding]; other site 1104322006862 putative Zn2+ binding site [ion binding]; other site 1104322006863 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1104322006864 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 1104322006865 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1104322006866 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1104322006867 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1104322006868 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1104322006869 ATP binding site [chemical binding]; other site 1104322006870 Walker B motif; other site 1104322006871 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322006872 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322006873 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1104322006874 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1104322006875 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 1104322006876 generic binding surface II; other site 1104322006877 generic binding surface I; other site 1104322006878 DNA polymerase III, alpha chain, Gram-positive type; Region: polC_Gram_pos; TIGR01405 1104322006879 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 1104322006880 generic binding surface II; other site 1104322006881 generic binding surface I; other site 1104322006882 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1104322006883 active site 1104322006884 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1104322006885 active site 1104322006886 catalytic site [active] 1104322006887 substrate binding site [chemical binding]; other site 1104322006888 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1104322006889 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1104322006890 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1104322006891 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1104322006892 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1104322006893 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1104322006894 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1104322006895 dimer interface [polypeptide binding]; other site 1104322006896 motif 1; other site 1104322006897 active site 1104322006898 motif 2; other site 1104322006899 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1104322006900 putative deacylase active site [active] 1104322006901 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1104322006902 active site 1104322006903 motif 3; other site 1104322006904 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 1104322006905 anticodon binding site; other site 1104322006906 RIP metalloprotease RseP; Region: TIGR00054 1104322006907 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1104322006908 active site 1104322006909 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 1104322006910 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1104322006911 protein binding site [polypeptide binding]; other site 1104322006912 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1104322006913 putative substrate binding region [chemical binding]; other site 1104322006914 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1104322006915 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1104322006916 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 1104322006917 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1104322006918 catalytic residue [active] 1104322006919 putative FPP diphosphate binding site; other site 1104322006920 putative FPP binding hydrophobic cleft; other site 1104322006921 dimer interface [polypeptide binding]; other site 1104322006922 putative IPP diphosphate binding site; other site 1104322006923 Preprotein translocase subunit; Region: YajC; cl00806 1104322006924 A new structural DNA glycosylase; Region: AlkD_like; cl11434 1104322006925 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1104322006926 active site 1104322006927 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322006928 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322006929 A new structural DNA glycosylase; Region: AlkD_like; cl11434 1104322006930 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1104322006931 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1104322006932 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1104322006933 protein binding site [polypeptide binding]; other site 1104322006934 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1104322006935 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104322006936 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1104322006937 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 1104322006938 putative ADP-binding pocket [chemical binding]; other site 1104322006939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 1104322006940 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1104322006941 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322006942 S-adenosylmethionine binding site [chemical binding]; other site 1104322006943 DNA polymerase I; Provisional; Region: PRK05755 1104322006944 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1104322006945 active site 1104322006946 putative 5' ssDNA interaction site; other site 1104322006947 metal binding site 3; metal-binding site 1104322006948 metal binding site 1 [ion binding]; metal-binding site 1104322006949 metal binding site 2 [ion binding]; metal-binding site 1104322006950 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1104322006951 putative DNA binding site [nucleotide binding]; other site 1104322006952 putative metal binding site [ion binding]; other site 1104322006953 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 1104322006954 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1104322006955 active site 1104322006956 DNA binding site [nucleotide binding] 1104322006957 catalytic site [active] 1104322006958 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1104322006959 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1104322006960 active site 1104322006961 motif I; other site 1104322006962 motif II; other site 1104322006963 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1104322006964 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1104322006965 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1104322006966 DNA binding site [nucleotide binding] 1104322006967 domain linker motif; other site 1104322006968 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1104322006969 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1104322006970 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 1104322006971 elongation factor Ts; Provisional; Region: tsf; PRK09377 1104322006972 UBA/TS-N domain; Region: UBA; pfam00627 1104322006973 Elongation factor TS; Region: EF_TS; pfam00889 1104322006974 Elongation factor TS; Region: EF_TS; pfam00889 1104322006975 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 1104322006976 rRNA interaction site [nucleotide binding]; other site 1104322006977 S8 interaction site; other site 1104322006978 putative laminin-1 binding site; other site 1104322006979 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cl00315 1104322006980 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 1104322006981 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1104322006982 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1104322006983 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1104322006984 putative catalytic cysteine [active] 1104322006985 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1104322006986 putative active site [active] 1104322006987 metal binding site [ion binding]; metal-binding site 1104322006988 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322006989 Transposase; Region: HTH_Tnp_1; pfam01527 1104322006990 putative transposase OrfB; Reviewed; Region: PHA02517 1104322006991 HTH-like domain; Region: HTH_21; pfam13276 1104322006992 Integrase core domain; Region: rve; pfam00665 1104322006993 Integrase core domain; Region: rve_3; pfam13683 1104322006994 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322006995 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322006996 KxxxW cyclic peptide radical SAM maturase; Region: rSAM_pep_cyc; TIGR04080 1104322006997 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1104322006998 FeS/SAM binding site; other site 1104322006999 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1104322007000 KxxxW-cyclized secreted peptide; Region: phero_cyc_pep; TIGR04079 1104322007001 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1104322007002 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1104322007003 protein binding site [polypeptide binding]; other site 1104322007004 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1104322007005 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 1104322007006 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1104322007007 active site 1104322007008 (T/H)XGH motif; other site 1104322007009 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1104322007010 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322007011 S-adenosylmethionine binding site [chemical binding]; other site 1104322007012 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322007013 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104322007014 putative substrate translocation pore; other site 1104322007015 potential frameshift: common BLAST hit: gi|125625203|ref|YP_001033686.1| multidrug resistance protein 1104322007016 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104322007017 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1104322007018 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1104322007019 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1104322007020 DNA binding residues [nucleotide binding] 1104322007021 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 1104322007022 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1104322007023 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1104322007024 active site 1104322007025 dimer interface [polypeptide binding]; other site 1104322007026 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1104322007027 dimer interface [polypeptide binding]; other site 1104322007028 active site 1104322007029 Flagellin N-methylase; Region: FliB; pfam03692 1104322007030 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1104322007031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322007032 NAD(P) binding site [chemical binding]; other site 1104322007033 active site 1104322007034 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322007035 non-specific DNA binding site [nucleotide binding]; other site 1104322007036 salt bridge; other site 1104322007037 sequence-specific DNA binding site [nucleotide binding]; other site 1104322007038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322007039 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1104322007040 NAD(P) binding site [chemical binding]; other site 1104322007041 active site 1104322007042 Predicted transcriptional regulators [Transcription]; Region: COG1733 1104322007043 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1104322007044 putative DNA binding site [nucleotide binding]; other site 1104322007045 dimerization interface [polypeptide binding]; other site 1104322007046 putative Zn2+ binding site [ion binding]; other site 1104322007047 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1104322007048 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1104322007049 active site 1104322007050 HIGH motif; other site 1104322007051 nucleotide binding site [chemical binding]; other site 1104322007052 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1104322007053 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1104322007054 active site 1104322007055 KMSKS motif; other site 1104322007056 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1104322007057 tRNA binding surface [nucleotide binding]; other site 1104322007058 anticodon binding site; other site 1104322007059 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1104322007060 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 1104322007061 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 1104322007062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1104322007063 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1104322007064 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1104322007065 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1104322007066 B3/4 domain; Region: B3_4; pfam03483 1104322007067 TRAM domain; Region: TRAM; pfam01938 1104322007068 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1104322007069 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1104322007070 S-adenosylmethionine binding site [chemical binding]; other site 1104322007071 potential frameshift: common BLAST hit: gi|281492837|ref|YP_003354817.1| Mucus-binding protein, LPXTG-anchored 1104322007072 legume lectins; Region: lectin_L-type; cl14058 1104322007073 carbohydrate binding site [chemical binding]; other site 1104322007074 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1104322007075 MucBP domain; Region: MucBP; pfam06458 1104322007076 MucBP domain; Region: MucBP; pfam06458 1104322007077 MucBP domain; Region: MucBP; pfam06458 1104322007078 legume lectins; Region: lectin_L-type; cl14058 1104322007079 carbohydrate binding site [chemical binding]; other site 1104322007080 metal binding site [ion binding]; metal-binding site 1104322007081 recombination regulator RecX; Provisional; Region: recX; PRK14135 1104322007082 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1104322007083 GntP family permease; Region: GntP_permease; pfam02447 1104322007084 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1104322007085 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1104322007086 N- and C-terminal domain interface [polypeptide binding]; other site 1104322007087 active site 1104322007088 catalytic site [active] 1104322007089 metal binding site [ion binding]; metal-binding site 1104322007090 carbohydrate binding site [chemical binding]; other site 1104322007091 ATP binding site [chemical binding]; other site 1104322007092 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1104322007093 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104322007094 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1104322007095 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1104322007096 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1104322007097 putative active site [active] 1104322007098 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 1104322007099 phosphodiesterase YaeI; Provisional; Region: PRK11340 1104322007100 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1104322007101 putative active site [active] 1104322007102 putative metal binding site [ion binding]; other site 1104322007103 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1104322007104 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1104322007105 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1104322007106 dimer interface [polypeptide binding]; other site 1104322007107 ssDNA binding site [nucleotide binding]; other site 1104322007108 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104322007109 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1104322007110 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1104322007111 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 1104322007112 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1104322007113 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322007114 Walker A motif; other site 1104322007115 ATP binding site [chemical binding]; other site 1104322007116 Walker B motif; other site 1104322007117 arginine finger; other site 1104322007118 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1104322007119 Phosphotransferase enzyme family; Region: APH; pfam01636 1104322007120 substrate binding site [chemical binding]; other site 1104322007121 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1104322007122 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1104322007123 hypothetical protein; Provisional; Region: PRK07248 1104322007124 potential frameshift: common BLAST hit: gi|281492855|ref|YP_003354835.1| phage integrase 1104322007125 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322007126 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1104322007127 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1104322007128 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322007129 non-specific DNA binding site [nucleotide binding]; other site 1104322007130 salt bridge; other site 1104322007131 sequence-specific DNA binding site [nucleotide binding]; other site 1104322007132 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322007133 non-specific DNA binding site [nucleotide binding]; other site 1104322007134 salt bridge; other site 1104322007135 sequence-specific DNA binding site [nucleotide binding]; other site 1104322007136 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 1104322007137 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1104322007138 Protein of unknown function (DUF1655); Region: DUF1655; pfam07868 1104322007139 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1104322007140 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 1104322007141 polymerase nucleotide-binding site; other site 1104322007142 DNA-binding residues [nucleotide binding]; DNA binding site 1104322007143 nucleotide binding site [chemical binding]; other site 1104322007144 primase nucleotide-binding site [nucleotide binding]; other site 1104322007145 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 1104322007146 Phage associated DNA primase [General function prediction only]; Region: COG3378 1104322007147 D5 N terminal like; Region: D5_N; smart00885 1104322007148 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1104322007149 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1104322007150 Phage head maturation protease [General function prediction only]; Region: COG3740 1104322007151 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1104322007152 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1104322007153 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1104322007154 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1104322007155 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1104322007156 DNA binding residues [nucleotide binding] 1104322007157 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1104322007158 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1104322007159 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322007160 MULE transposase domain; Region: MULE; pfam10551 1104322007161 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1104322007162 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322007163 Walker A motif; other site 1104322007164 ATP binding site [chemical binding]; other site 1104322007165 Walker B motif; other site 1104322007166 arginine finger; other site 1104322007167 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1104322007168 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1104322007169 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1104322007170 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1104322007171 ATP binding site [chemical binding]; other site 1104322007172 Mg2+ binding site [ion binding]; other site 1104322007173 G-X-G motif; other site 1104322007174 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1104322007175 ATP binding site [chemical binding]; other site 1104322007176 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1104322007177 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1104322007178 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1104322007179 MutS domain I; Region: MutS_I; pfam01624 1104322007180 MutS domain II; Region: MutS_II; pfam05188 1104322007181 MutS domain III; Region: MutS_III; pfam05192 1104322007182 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1104322007183 Walker A/P-loop; other site 1104322007184 ATP binding site [chemical binding]; other site 1104322007185 Q-loop/lid; other site 1104322007186 ABC transporter signature motif; other site 1104322007187 Walker B; other site 1104322007188 D-loop; other site 1104322007189 H-loop/switch region; other site 1104322007190 Predicted membrane protein [Function unknown]; Region: COG4550 1104322007191 potential frameshift: common BLAST hit: gi|125625250|ref|YP_001033733.1| 3-hydroxyisobutyrate dehydrogenase 1104322007192 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1104322007193 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104322007194 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 1104322007195 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1104322007196 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 1104322007197 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1104322007198 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1104322007199 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1104322007200 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1104322007201 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1104322007202 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322007203 active site 1104322007204 motif I; other site 1104322007205 motif II; other site 1104322007206 chaperone protein DnaJ; Provisional; Region: PRK14276 1104322007207 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1104322007208 HSP70 interaction site [polypeptide binding]; other site 1104322007209 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1104322007210 substrate binding site [polypeptide binding]; other site 1104322007211 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1104322007212 Zn binding sites [ion binding]; other site 1104322007213 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1104322007214 substrate binding site [polypeptide binding]; other site 1104322007215 dimer interface [polypeptide binding]; other site 1104322007216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4990 1104322007217 aspartate racemase; Region: asp_race; TIGR00035 1104322007218 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1104322007219 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 1104322007220 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1104322007221 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1104322007222 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1104322007223 active site 1104322007224 dimer interface [polypeptide binding]; other site 1104322007225 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1104322007226 Ligand Binding Site [chemical binding]; other site 1104322007227 Molecular Tunnel; other site 1104322007228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1104322007229 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1104322007230 Surface antigen [General function prediction only]; Region: COG3942 1104322007231 CHAP domain; Region: CHAP; pfam05257 1104322007232 rod shape-determining protein MreD; Region: MreD; pfam04093 1104322007233 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1104322007234 rod shape-determining protein MreC; Region: MreC; pfam04085 1104322007235 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 1104322007236 nudix motif; other site 1104322007237 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1104322007238 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1104322007239 active site 1104322007240 dimer interface [polypeptide binding]; other site 1104322007241 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1104322007242 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1104322007243 ligand binding site [chemical binding]; other site 1104322007244 flexible hinge region; other site 1104322007245 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1104322007246 putative switch regulator; other site 1104322007247 non-specific DNA interactions [nucleotide binding]; other site 1104322007248 DNA binding site [nucleotide binding] 1104322007249 sequence specific DNA binding site [nucleotide binding]; other site 1104322007250 putative cAMP binding site [chemical binding]; other site 1104322007251 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1104322007252 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322007253 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1104322007254 Ligand Binding Site [chemical binding]; other site 1104322007255 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1104322007256 nucleotide binding site [chemical binding]; other site 1104322007257 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1104322007258 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1104322007259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 1104322007260 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1104322007261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1104322007262 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104322007263 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104322007264 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1104322007265 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1104322007266 RNA binding surface [nucleotide binding]; other site 1104322007267 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1104322007268 active site 1104322007269 uracil binding [chemical binding]; other site 1104322007270 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1104322007271 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1104322007272 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1104322007273 G1 box; other site 1104322007274 GTP/Mg2+ binding site [chemical binding]; other site 1104322007275 Switch I region; other site 1104322007276 G2 box; other site 1104322007277 Switch II region; other site 1104322007278 G3 box; other site 1104322007279 G4 box; other site 1104322007280 G5 box; other site 1104322007281 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1104322007282 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1104322007283 active site 1104322007284 ATP binding site [chemical binding]; other site 1104322007285 substrate binding site [chemical binding]; other site 1104322007286 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1104322007287 activation loop (A-loop); other site 1104322007288 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 1104322007289 active site 1104322007290 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1104322007291 non-specific DNA binding site [nucleotide binding]; other site 1104322007292 salt bridge; other site 1104322007293 sequence-specific DNA binding site [nucleotide binding]; other site 1104322007294 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1104322007295 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1104322007296 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1104322007297 generic binding surface II; other site 1104322007298 ssDNA binding site; other site 1104322007299 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1104322007300 ATP binding site [chemical binding]; other site 1104322007301 putative Mg++ binding site [ion binding]; other site 1104322007302 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1104322007303 nucleotide binding region [chemical binding]; other site 1104322007304 ATP-binding site [chemical binding]; other site 1104322007305 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1104322007306 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1104322007307 PhnA protein; Region: PhnA; pfam03831 1104322007308 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1104322007309 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1104322007310 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1104322007311 seryl-tRNA synthetase; Region: serS; TIGR00414 1104322007312 potential frameshift: common BLAST hit: gi|116513191|ref|YP_812098.1| cation transport ATPase 1104322007313 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1104322007314 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104322007315 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104322007316 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1104322007317 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1104322007318 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1104322007319 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1104322007320 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104322007321 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104322007322 oxidoreductase; Provisional; Region: PRK06196 1104322007323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1104322007324 NAD(P) binding site [chemical binding]; other site 1104322007325 active site 1104322007326 CAAX protease self-immunity; Region: Abi; pfam02517 1104322007327 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1104322007328 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 1104322007329 23S rRNA interface [nucleotide binding]; other site 1104322007330 L3 interface [polypeptide binding]; other site 1104322007331 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1104322007332 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1104322007333 FtsX-like permease family; Region: FtsX; pfam02687 1104322007334 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1104322007335 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1104322007336 Walker A/P-loop; other site 1104322007337 ATP binding site [chemical binding]; other site 1104322007338 Q-loop/lid; other site 1104322007339 ABC transporter signature motif; other site 1104322007340 Walker B; other site 1104322007341 D-loop; other site 1104322007342 H-loop/switch region; other site 1104322007343 ribonuclease HIII; Provisional; Region: PRK00996 1104322007344 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1104322007345 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1104322007346 RNA/DNA hybrid binding site [nucleotide binding]; other site 1104322007347 active site 1104322007348 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1104322007349 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1104322007350 Catalytic site [active] 1104322007351 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1104322007352 pur operon repressor; Provisional; Region: PRK09213 1104322007353 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1104322007354 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1104322007355 active site 1104322007356 elongation factor G; Reviewed; Region: PRK00007 1104322007357 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1104322007358 G1 box; other site 1104322007359 putative GEF interaction site [polypeptide binding]; other site 1104322007360 GTP/Mg2+ binding site [chemical binding]; other site 1104322007361 Switch I region; other site 1104322007362 G2 box; other site 1104322007363 G3 box; other site 1104322007364 Switch II region; other site 1104322007365 G4 box; other site 1104322007366 G5 box; other site 1104322007367 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1104322007368 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1104322007369 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1104322007370 30S ribosomal protein S7; Validated; Region: PRK05302 1104322007371 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 1104322007372 S17 interaction site [polypeptide binding]; other site 1104322007373 S8 interaction site; other site 1104322007374 16S rRNA interaction site [nucleotide binding]; other site 1104322007375 streptomycin interaction site [chemical binding]; other site 1104322007376 23S rRNA interaction site [nucleotide binding]; other site 1104322007377 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1104322007378 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1104322007379 Beta-lactamase; Region: Beta-lactamase; cl17358 1104322007380 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1104322007381 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1104322007382 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1104322007383 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1104322007384 Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]; Region: COG5527 1104322007385 Initiator Replication protein; Region: Rep_3; pfam01051 1104322007386 Lactococcus lactis RepB C-terminus; Region: L_lactis_RepB_C; pfam06430 1104322007387 AAA domain; Region: AAA_31; pfam13614 1104322007388 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1104322007389 P-loop; other site 1104322007390 Magnesium ion binding site [ion binding]; other site 1104322007391 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1104322007392 Magnesium ion binding site [ion binding]; other site 1104322007393 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1104322007394 active site 1104322007395 catalytic residues [active] 1104322007396 Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]; Region: COG5527 1104322007397 Initiator Replication protein; Region: Rep_3; pfam01051 1104322007398 Lactococcus lactis RepB C-terminus; Region: L_lactis_RepB_C; pfam06430 1104322007399 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1104322007400 MobA/MobL family; Region: MobA_MobL; pfam03389 1104322007401 Integrase core domain; Region: rve; pfam00665 1104322007402 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1104322007403 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007404 manganese transport protein MntH; Reviewed; Region: PRK00701 1104322007405 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1104322007406 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1104322007407 Ligand Binding Site [chemical binding]; other site 1104322007408 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007409 Integrase core domain; Region: rve; pfam00665 1104322007410 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1104322007411 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 1104322007412 gating phenylalanine in ion channel; other site 1104322007413 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322007414 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322007415 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 1104322007416 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1104322007417 active site 1104322007418 catalytic residues [active] 1104322007419 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 1104322007420 beta-galactosidase; Region: BGL; TIGR03356 1104322007421 phosphotransferase system, lactose specific, IIC component; Region: lac_pts_IIC; TIGR00394 1104322007422 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1104322007423 PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two...; Region: PTS_IIB_lactose; cd05565 1104322007424 active site 1104322007425 P-loop; other site 1104322007426 phosphorylation site [posttranslational modification] 1104322007427 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 1104322007428 methionine cluster; other site 1104322007429 active site 1104322007430 phosphorylation site [posttranslational modification] 1104322007431 metal binding site [ion binding]; metal-binding site 1104322007432 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 1104322007433 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1104322007434 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 1104322007435 putative substrate binding site [chemical binding]; other site 1104322007436 putative ATP binding site [chemical binding]; other site 1104322007437 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 1104322007438 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 1104322007439 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1104322007440 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1104322007441 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1104322007442 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1104322007443 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1104322007444 catalytic residues [active] 1104322007445 catalytic nucleophile [active] 1104322007446 Presynaptic Site I dimer interface [polypeptide binding]; other site 1104322007447 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1104322007448 Synaptic Flat tetramer interface [polypeptide binding]; other site 1104322007449 Synaptic Site I dimer interface [polypeptide binding]; other site 1104322007450 DNA binding site [nucleotide binding] 1104322007451 HTH-like domain; Region: HTH_21; pfam13276 1104322007452 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1104322007453 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1104322007454 active site 1104322007455 Zn binding site [ion binding]; other site 1104322007456 Competence protein CoiA-like family; Region: CoiA; cl11541 1104322007457 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007458 Integrase core domain; Region: rve; pfam00665 1104322007459 D-lactate dehydrogenase; Provisional; Region: PRK11183 1104322007460 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1104322007461 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007462 Integrase core domain; Region: rve; pfam00665 1104322007463 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1104322007464 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322007465 putative substrate translocation pore; other site 1104322007466 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007467 Integrase core domain; Region: rve; pfam00665 1104322007468 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322007469 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1104322007470 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1104322007471 metal binding site [ion binding]; metal-binding site 1104322007472 dimer interface [polypeptide binding]; other site 1104322007473 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1104322007474 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1104322007475 catalytic residues [active] 1104322007476 catalytic nucleophile [active] 1104322007477 Presynaptic Site I dimer interface [polypeptide binding]; other site 1104322007478 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1104322007479 Synaptic Flat tetramer interface [polypeptide binding]; other site 1104322007480 Synaptic Site I dimer interface [polypeptide binding]; other site 1104322007481 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1104322007482 DNA-binding interface [nucleotide binding]; DNA binding site 1104322007483 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1104322007484 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1104322007485 active site 1104322007486 Zn binding site [ion binding]; other site 1104322007487 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 1104322007488 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1104322007489 peptide binding site [polypeptide binding]; other site 1104322007490 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1104322007491 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1104322007492 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322007493 dimer interface [polypeptide binding]; other site 1104322007494 conserved gate region; other site 1104322007495 putative PBP binding loops; other site 1104322007496 ABC-ATPase subunit interface; other site 1104322007497 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1104322007498 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1104322007499 dimer interface [polypeptide binding]; other site 1104322007500 conserved gate region; other site 1104322007501 putative PBP binding loops; other site 1104322007502 ABC-ATPase subunit interface; other site 1104322007503 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104322007504 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1104322007505 Walker A/P-loop; other site 1104322007506 ATP binding site [chemical binding]; other site 1104322007507 Q-loop/lid; other site 1104322007508 ABC transporter signature motif; other site 1104322007509 Walker B; other site 1104322007510 D-loop; other site 1104322007511 H-loop/switch region; other site 1104322007512 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1104322007513 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1104322007514 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1104322007515 Walker A/P-loop; other site 1104322007516 ATP binding site [chemical binding]; other site 1104322007517 Q-loop/lid; other site 1104322007518 ABC transporter signature motif; other site 1104322007519 Walker B; other site 1104322007520 D-loop; other site 1104322007521 H-loop/switch region; other site 1104322007522 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1104322007523 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322007524 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322007525 Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]; Region: COG5527 1104322007526 Initiator Replication protein; Region: Rep_3; pfam01051 1104322007527 Lactococcus lactis RepB C-terminus; Region: L_lactis_RepB_C; pfam06430 1104322007528 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 1104322007529 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322007530 Walker A motif; other site 1104322007531 ATP binding site [chemical binding]; other site 1104322007532 Walker B motif; other site 1104322007533 arginine finger; other site 1104322007534 Replication initiation factor; Region: Rep_trans; pfam02486 1104322007535 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 1104322007536 nudix motif; other site 1104322007537 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322007538 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322007539 EamA-like transporter family; Region: EamA; pfam00892 1104322007540 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1104322007541 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007542 Integrase core domain; Region: rve; pfam00665 1104322007543 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 1104322007544 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1104322007545 ATP binding site [chemical binding]; other site 1104322007546 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1104322007547 putative Mg++ binding site [ion binding]; other site 1104322007548 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1104322007549 DNA methylase; Region: N6_N4_Mtase; pfam01555 1104322007550 DNA methylase; Region: N6_N4_Mtase; cl17433 1104322007551 Lactococcus lactis RepB C-terminus; Region: L_lactis_RepB_C; pfam06430 1104322007552 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1104322007553 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1104322007554 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1104322007555 putative active site [active] 1104322007556 putative NTP binding site [chemical binding]; other site 1104322007557 putative nucleic acid binding site [nucleotide binding]; other site 1104322007558 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1104322007559 Type II intron maturase; Region: Intron_maturas2; pfam01348 1104322007560 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1104322007561 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1104322007562 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 1104322007563 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1104322007564 FeS/SAM binding site; other site 1104322007565 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1104322007566 ATP cone domain; Region: ATP-cone; pfam03477 1104322007567 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1104322007568 effector binding site; other site 1104322007569 active site 1104322007570 Zn binding site [ion binding]; other site 1104322007571 glycine loop; other site 1104322007572 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1104322007573 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1104322007574 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1104322007575 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322007576 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322007577 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1104322007578 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1104322007579 motif II; other site 1104322007580 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 1104322007581 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 1104322007582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1104322007583 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1104322007584 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1104322007585 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1104322007586 active site 1104322007587 dimer interface [polypeptide binding]; other site 1104322007588 metal binding site [ion binding]; metal-binding site 1104322007589 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1104322007590 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1104322007591 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1104322007592 shikimate binding site; other site 1104322007593 NAD(P) binding site [chemical binding]; other site 1104322007594 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1104322007595 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1104322007596 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322007597 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322007598 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1104322007599 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1104322007600 metal binding site [ion binding]; metal-binding site 1104322007601 dimer interface [polypeptide binding]; other site 1104322007602 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322007603 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007604 Integrase core domain; Region: rve; pfam00665 1104322007605 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1104322007606 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1104322007607 putative substrate translocation pore; other site 1104322007608 VanZ like family; Region: VanZ; cl01971 1104322007609 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007610 Integrase core domain; Region: rve; pfam00665 1104322007611 D-lactate dehydrogenase; Provisional; Region: PRK11183 1104322007612 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1104322007613 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007614 Integrase core domain; Region: rve; pfam00665 1104322007615 Competence protein CoiA-like family; Region: CoiA; cl11541 1104322007616 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1104322007617 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1104322007618 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007619 Integrase core domain; Region: rve; pfam00665 1104322007620 TrkA-N domain; Region: TrkA_N; pfam02254 1104322007621 Isochorismatase family; Region: Isochorismatase; pfam00857 1104322007622 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1104322007623 catalytic triad [active] 1104322007624 conserved cis-peptide bond; other site 1104322007625 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1104322007626 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1104322007627 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007628 Integrase core domain; Region: rve; pfam00665 1104322007629 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1104322007630 Integrase core domain; Region: rve; pfam00665 1104322007631 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1104322007632 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1104322007633 Walker A motif; other site 1104322007634 ATP binding site [chemical binding]; other site 1104322007635 Walker B motif; other site 1104322007636 arginine finger; other site 1104322007637 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 1104322007638 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322007639 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322007640 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322007641 Helix-turn-helix domain; Region: HTH_28; pfam13518 1104322007642 putative transposase OrfB; Reviewed; Region: PHA02517 1104322007643 HTH-like domain; Region: HTH_21; pfam13276 1104322007644 Integrase core domain; Region: rve; pfam00665 1104322007645 Integrase core domain; Region: rve_2; pfam13333 1104322007646 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104322007647 DNA-binding site [nucleotide binding]; DNA binding site 1104322007648 RNA-binding motif; other site 1104322007649 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1104322007650 DNA-binding site [nucleotide binding]; DNA binding site 1104322007651 RNA-binding motif; other site 1104322007652 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1104322007653 Integrase core domain; Region: rve; pfam00665 1104322007654 Integrase core domain; Region: rve; pfam00665 1104322007655 Integrase core domain; Region: rve_3; cl15866 1104322007656 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1104322007657 potential frameshift: common BLAST hit: gi|125625249|ref|YP_001033732.1| transposase for insertion sequence element IS905N 1104322007658 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322007659 MULE transposase domain; Region: MULE; pfam10551 1104322007660 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1104322007661 potential frameshift: common BLAST hit: gi|341580601|ref|YP_004761579.1| UmuC protein 1104322007662 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1104322007663 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1104322007664 active site 1104322007665 DNA binding site [nucleotide binding] 1104322007666 DNA polymerase IV; Reviewed; Region: PRK03103 1104322007667 ParB-like nuclease domain; Region: ParB; smart00470 1104322007668 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1104322007669 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1104322007670 P-loop; other site 1104322007671 Magnesium ion binding site [ion binding]; other site 1104322007672 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1104322007673 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1104322007674 Initiator Replication protein; Region: Rep_3; cl17676 1104322007675 Predicted transcriptional regulator [Transcription]; Region: COG2932 1104322007676 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 1104322007677 Catalytic site [active] 1104322007678 HTH-like domain; Region: HTH_21; pfam13276 1104322007679 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1104322007680 Integrase core domain; Region: rve; pfam00665 1104322007681 Integrase core domain; Region: rve_3; pfam13683 1104322007682 Transposase; Region: HTH_Tnp_1; pfam01527 1104322007683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1104322007684 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1104322007685 Plasmid replication protein; Region: Rep_2; pfam01719 1104322007686 RNA helicase; Region: RNA_helicase; pfam00910