-- dump date 20140620_081910 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1051072000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1051072000002 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 1051072000003 Walker A motif; other site 1051072000004 ATP binding site [chemical binding]; other site 1051072000005 Walker B motif; other site 1051072000006 arginine finger; other site 1051072000007 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 1051072000008 DnaA box-binding interface [nucleotide binding]; other site 1051072000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 1051072000010 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 1051072000011 putative DNA binding surface [nucleotide binding]; other site 1051072000012 dimer interface [polypeptide binding]; other site 1051072000013 beta-clamp/clamp loader binding surface; other site 1051072000014 beta-clamp/translesion DNA polymerase binding surface; other site 1051072000015 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1051072000016 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1051072000017 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 1051072000018 non-specific DNA binding site [nucleotide binding]; other site 1051072000019 salt bridge; other site 1051072000020 sequence-specific DNA binding site [nucleotide binding]; other site 1051072000021 GTP-binding protein YchF; Reviewed; Region: PRK09601 1051072000022 YchF GTPase; Region: YchF; cd01900 1051072000023 G1 box; other site 1051072000024 GTP/Mg2+ binding site [chemical binding]; other site 1051072000025 Switch I region; other site 1051072000026 G2 box; other site 1051072000027 Switch II region; other site 1051072000028 G3 box; other site 1051072000029 G4 box; other site 1051072000030 G5 box; other site 1051072000031 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 1051072000032 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 1051072000033 putative active site [active] 1051072000034 catalytic residue [active] 1051072000035 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1051072000036 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1051072000037 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 1051072000038 ATP binding site [chemical binding]; other site 1051072000039 putative Mg++ binding site [ion binding]; other site 1051072000040 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 1051072000041 nucleotide binding region [chemical binding]; other site 1051072000042 ATP-binding site [chemical binding]; other site 1051072000043 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1051072000044 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 1051072000045 RNA binding surface [nucleotide binding]; other site 1051072000046 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1051072000047 Septum formation initiator; Region: DivIC; pfam04977 1051072000048 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1051072000049 SH3-like domain; Region: SH3_8; pfam13457 1051072000050 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1051072000051 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1051072000052 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 1051072000053 Ligand Binding Site [chemical binding]; other site 1051072000054 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1051072000055 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1051072000056 active site 1051072000057 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1051072000058 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 1051072000059 Walker A motif; other site 1051072000060 ATP binding site [chemical binding]; other site 1051072000061 Walker B motif; other site 1051072000062 arginine finger; other site 1051072000063 Peptidase family M41; Region: Peptidase_M41; pfam01434 1051072000064 amino acid transporter; Region: 2A0306; TIGR00909 1051072000065 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1051072000066 rod shape-determining protein MreC; Provisional; Region: PRK13922 1051072000067 rod shape-determining protein MreC; Region: MreC; pfam04085 1051072000068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1051072000069 Surface antigen [General function prediction only]; Region: COG3942 1051072000070 CHAP domain; Region: CHAP; pfam05257 1051072000071 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 1051072000072 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1051072000073 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1051072000074 active site 1051072000075 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1051072000076 Recombination protein O N terminal; Region: RecO_N; pfam11967 1051072000077 Recombination protein O C terminal; Region: RecO_C; pfam02565 1051072000078 putative phosphate acyltransferase; Provisional; Region: PRK05331 1051072000079 acyl carrier protein; Provisional; Region: PRK12449 1051072000080 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1051072000081 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1051072000082 ATP binding site [chemical binding]; other site 1051072000083 active site 1051072000084 substrate binding site [chemical binding]; other site 1051072000085 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 1051072000086 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1051072000087 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 1051072000088 dimerization interface [polypeptide binding]; other site 1051072000089 ATP binding site [chemical binding]; other site 1051072000090 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 1051072000091 dimerization interface [polypeptide binding]; other site 1051072000092 ATP binding site [chemical binding]; other site 1051072000093 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1051072000094 putative active site [active] 1051072000095 catalytic triad [active] 1051072000096 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1051072000097 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 1051072000098 active site 1051072000099 tetramer interface [polypeptide binding]; other site 1051072000100 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1051072000101 active site 1051072000102 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1051072000103 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 1051072000104 dimerization interface [polypeptide binding]; other site 1051072000105 putative ATP binding site [chemical binding]; other site 1051072000106 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1051072000107 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1051072000108 active site 1051072000109 substrate binding site [chemical binding]; other site 1051072000110 cosubstrate binding site; other site 1051072000111 catalytic site [active] 1051072000112 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1051072000113 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 1051072000114 purine monophosphate binding site [chemical binding]; other site 1051072000115 dimer interface [polypeptide binding]; other site 1051072000116 putative catalytic residues [active] 1051072000117 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1051072000118 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1051072000119 Surface antigen [General function prediction only]; Region: COG3942 1051072000120 CHAP domain; Region: CHAP; pfam05257 1051072000121 Bacterial SH3 domain; Region: SH3_5; pfam08460 1051072000122 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1051072000123 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1051072000124 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1051072000125 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1051072000126 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1051072000127 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1051072000128 ATP-grasp domain; Region: ATP-grasp; pfam02222 1051072000129 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1051072000130 adenylosuccinate lyase; Provisional; Region: PRK07492 1051072000131 active site 1051072000132 tetramer interface [polypeptide binding]; other site 1051072000133 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1051072000134 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 1051072000135 non-specific DNA binding site [nucleotide binding]; other site 1051072000136 salt bridge; other site 1051072000137 sequence-specific DNA binding site [nucleotide binding]; other site 1051072000138 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1051072000139 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 1051072000140 Walker A motif; other site 1051072000141 ATP binding site [chemical binding]; other site 1051072000142 Walker B motif; other site 1051072000143 arginine finger; other site 1051072000144 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1051072000145 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1051072000146 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1051072000147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1051072000148 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1051072000149 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 1051072000150 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 1051072000151 catalytic triad [active] 1051072000152 catalytic triad [active] 1051072000153 oxyanion hole [active] 1051072000154 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1051072000155 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1051072000156 putative catalytic cysteine [active] 1051072000157 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1051072000158 putative active site [active] 1051072000159 metal binding site [ion binding]; metal-binding site 1051072000160 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 1051072000161 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1051072000162 catalytic Zn binding site [ion binding]; other site 1051072000163 structural Zn binding site [ion binding]; other site 1051072000164 NAD(P) binding site [chemical binding]; other site 1051072000165 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 1051072000166 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1051072000167 NAD binding site [chemical binding]; other site 1051072000168 substrate binding site [chemical binding]; other site 1051072000169 catalytic Zn binding site [ion binding]; other site 1051072000170 tetramer interface [polypeptide binding]; other site 1051072000171 structural Zn binding site [ion binding]; other site 1051072000172 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1051072000173 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 1051072000174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1051072000175 catalytic residue [active] 1051072000176 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1051072000177 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1051072000178 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1051072000179 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1051072000180 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1051072000181 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1051072000182 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1051072000183 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1051072000184 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1051072000185 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1051072000186 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 1051072000187 putative translocon binding site; other site 1051072000188 protein-rRNA interface [nucleotide binding]; other site 1051072000189 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1051072000190 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 1051072000191 G-X-X-G motif; other site 1051072000192 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1051072000193 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 1051072000194 23S rRNA interface [nucleotide binding]; other site 1051072000195 5S rRNA interface [nucleotide binding]; other site 1051072000196 putative antibiotic binding site [chemical binding]; other site 1051072000197 L25 interface [polypeptide binding]; other site 1051072000198 L27 interface [polypeptide binding]; other site 1051072000199 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 1051072000200 23S rRNA interface [nucleotide binding]; other site 1051072000201 putative translocon interaction site; other site 1051072000202 signal recognition particle (SRP54) interaction site; other site 1051072000203 L23 interface [polypeptide binding]; other site 1051072000204 trigger factor interaction site; other site 1051072000205 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1051072000206 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1051072000207 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1051072000208 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1051072000209 RNA binding site [nucleotide binding]; other site 1051072000210 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1051072000211 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1051072000212 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1051072000213 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1051072000214 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1051072000215 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1051072000216 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1051072000217 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1051072000218 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1051072000219 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1051072000220 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 1051072000221 23S rRNA binding site [nucleotide binding]; other site 1051072000222 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1051072000223 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1051072000224 SecY translocase; Region: SecY; pfam00344 1051072000225 adenylate kinase; Reviewed; Region: adk; PRK00279 1051072000226 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 1051072000227 AMP-binding site [chemical binding]; other site 1051072000228 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1051072000229 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 1051072000230 rRNA binding site [nucleotide binding]; other site 1051072000231 predicted 30S ribosome binding site; other site 1051072000232 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1051072000233 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1051072000234 30S ribosomal protein S11; Validated; Region: PRK05309 1051072000235 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1051072000236 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1051072000237 alphaNTD - beta interaction site [polypeptide binding]; other site 1051072000238 alphaNTD - beta' interaction site [polypeptide binding]; other site 1051072000239 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1051072000240 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1051072000241 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 1051072000242 H+ Antiporter protein; Region: 2A0121; TIGR00900 1051072000243 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1051072000244 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1051072000245 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1051072000246 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1051072000247 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_34; cd04693 1051072000248 nudix motif; other site 1051072000249 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1051072000250 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1051072000251 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1051072000252 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1051072000253 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 1051072000254 putative Zn2+ binding site [ion binding]; other site 1051072000255 putative DNA binding site [nucleotide binding]; other site 1051072000256 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1051072000257 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1051072000258 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1051072000259 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 1051072000260 ABC-ATPase subunit interface; other site 1051072000261 dimer interface [polypeptide binding]; other site 1051072000262 putative PBP binding regions; other site 1051072000263 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1051072000264 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1051072000265 active site 1051072000266 HIGH motif; other site 1051072000267 dimer interface [polypeptide binding]; other site 1051072000268 KMSKS motif; other site 1051072000269 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 1051072000270 RNA binding surface [nucleotide binding]; other site 1051072000271 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1051072000272 Transglycosylase; Region: Transgly; pfam00912 1051072000273 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1051072000274 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1051072000275 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 1051072000276 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1051072000277 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 1051072000278 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 1051072000279 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 1051072000280 RPB1 interaction site [polypeptide binding]; other site 1051072000281 RPB10 interaction site [polypeptide binding]; other site 1051072000282 RPB11 interaction site [polypeptide binding]; other site 1051072000283 RPB3 interaction site [polypeptide binding]; other site 1051072000284 RPB12 interaction site [polypeptide binding]; other site 1051072000285 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1051072000286 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1051072000287 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1051072000288 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1051072000289 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1051072000290 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1051072000291 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1051072000292 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1051072000293 G-loop; other site 1051072000294 DNA binding site [nucleotide binding] 1051072000295 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1051072000296 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 1051072000297 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1051072000298 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1051072000299 active site 1051072000300 ATP binding site [chemical binding]; other site 1051072000301 substrate binding site [chemical binding]; other site 1051072000302 activation loop (A-loop); other site 1051072000303 H+ Antiporter protein; Region: 2A0121; TIGR00900 1051072000304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 1051072000305 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 1051072000306 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1051072000307 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1051072000308 Walker A/P-loop; other site 1051072000309 ATP binding site [chemical binding]; other site 1051072000310 Q-loop/lid; other site 1051072000311 ABC transporter signature motif; other site 1051072000312 Walker B; other site 1051072000313 D-loop; other site 1051072000314 H-loop/switch region; other site 1051072000315 Type II/IV secretion system protein; Region: T2SE; pfam00437 1051072000316 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 1051072000317 Walker A motif; other site 1051072000318 ATP binding site [chemical binding]; other site 1051072000319 Walker B motif; other site 1051072000320 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1051072000321 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1051072000322 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1051072000323 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1051072000324 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 1051072000325 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1051072000326 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1051072000327 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1051072000328 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1051072000329 propionate/acetate kinase; Provisional; Region: PRK12379 1051072000330 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1051072000331 PRD domain; Region: PRD; pfam00874 1051072000332 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 1051072000333 active site 1051072000334 P-loop; other site 1051072000335 phosphorylation site [posttranslational modification] 1051072000336 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 1051072000337 active site 1051072000338 phosphorylation site [posttranslational modification] 1051072000339 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 1051072000340 active site 1051072000341 P-loop; other site 1051072000342 phosphorylation site [posttranslational modification] 1051072000343 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1051072000344 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 1051072000345 TPP-binding site [chemical binding]; other site 1051072000346 dimer interface [polypeptide binding]; other site 1051072000347 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1051072000348 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 1051072000349 PYR/PP interface [polypeptide binding]; other site 1051072000350 dimer interface [polypeptide binding]; other site 1051072000351 TPP binding site [chemical binding]; other site 1051072000352 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1051072000353 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1051072000354 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1051072000355 active site 1051072000356 Zn binding site [ion binding]; other site 1051072000357 elongation factor Ts; Provisional; Region: tsf; PRK09377 1051072000358 UBA/TS-N domain; Region: UBA; pfam00627 1051072000359 Elongation factor TS; Region: EF_TS; pfam00889 1051072000360 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 1051072000361 rRNA interaction site [nucleotide binding]; other site 1051072000362 S8 interaction site; other site 1051072000363 putative laminin-1 binding site; other site 1051072000364 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1051072000365 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 1051072000366 catalytic residue [active] 1051072000367 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 1051072000368 catalytic residues [active] 1051072000369 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1051072000370 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1051072000371 peroxiredoxin; Region: AhpC; TIGR03137 1051072000372 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 1051072000373 dimer interface [polypeptide binding]; other site 1051072000374 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1051072000375 catalytic triad [active] 1051072000376 peroxidatic and resolving cysteines [active] 1051072000377 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 1051072000378 DNA-binding site [nucleotide binding]; DNA binding site 1051072000379 RNA-binding motif; other site 1051072000380 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 1051072000381 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1051072000382 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 1051072000383 Walker A motif; other site 1051072000384 ATP binding site [chemical binding]; other site 1051072000385 Walker B motif; other site 1051072000386 arginine finger; other site 1051072000387 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 1051072000388 Walker A motif; other site 1051072000389 ATP binding site [chemical binding]; other site 1051072000390 Walker B motif; other site 1051072000391 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1051072000392 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 1051072000393 nucleophilic elbow; other site 1051072000394 catalytic triad; other site 1051072000395 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 1051072000396 oligomerisation interface [polypeptide binding]; other site 1051072000397 mobile loop; other site 1051072000398 roof hairpin; other site 1051072000399 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1051072000400 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 1051072000401 ring oligomerisation interface [polypeptide binding]; other site 1051072000402 ATP/Mg binding site [chemical binding]; other site 1051072000403 stacking interactions; other site 1051072000404 hinge regions; other site 1051072000405 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 1051072000406 putative active site [active] 1051072000407 nucleotide binding site [chemical binding]; other site 1051072000408 nudix motif; other site 1051072000409 putative metal binding site [ion binding]; other site 1051072000410 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 1051072000411 non-specific DNA binding site [nucleotide binding]; other site 1051072000412 salt bridge; other site 1051072000413 sequence-specific DNA binding site [nucleotide binding]; other site 1051072000414 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1051072000415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072000416 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1051072000417 Walker A/P-loop; other site 1051072000418 ATP binding site [chemical binding]; other site 1051072000419 Q-loop/lid; other site 1051072000420 ABC transporter signature motif; other site 1051072000421 Walker B; other site 1051072000422 D-loop; other site 1051072000423 H-loop/switch region; other site 1051072000424 Predicted membrane protein [Function unknown]; Region: COG4640 1051072000425 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1051072000426 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1051072000427 active site 1051072000428 Transglutaminase/protease-like homologues; Region: TGc; smart00460 1051072000429 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 1051072000430 homotrimer interaction site [polypeptide binding]; other site 1051072000431 putative active site [active] 1051072000432 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1051072000433 Transglycosylase; Region: Transgly; pfam00912 1051072000434 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1051072000435 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 1051072000436 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1051072000437 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1051072000438 putative homodimer interface [polypeptide binding]; other site 1051072000439 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1051072000440 heterodimer interface [polypeptide binding]; other site 1051072000441 homodimer interface [polypeptide binding]; other site 1051072000442 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 1051072000443 Mga helix-turn-helix domain; Region: Mga; pfam05043 1051072000444 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 1051072000445 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1051072000446 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1051072000447 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1051072000448 HIGH motif; other site 1051072000449 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1051072000450 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1051072000451 active site 1051072000452 KMSKS motif; other site 1051072000453 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1051072000454 tRNA binding surface [nucleotide binding]; other site 1051072000455 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072000456 D-loop; other site 1051072000457 H-loop/switch region; other site 1051072000458 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 1051072000459 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 1051072000460 active site 1051072000461 P-loop; other site 1051072000462 phosphorylation site [posttranslational modification] 1051072000463 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 1051072000464 active site 1051072000465 phosphorylation site [posttranslational modification] 1051072000466 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1051072000467 active site 1051072000468 dimer interface [polypeptide binding]; other site 1051072000469 magnesium binding site [ion binding]; other site 1051072000470 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1051072000471 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1051072000472 AP (apurinic/apyrimidinic) site pocket; other site 1051072000473 DNA interaction; other site 1051072000474 Metal-binding active site; metal-binding site 1051072000475 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 1051072000476 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1051072000477 intersubunit interface [polypeptide binding]; other site 1051072000478 active site 1051072000479 Zn2+ binding site [ion binding]; other site 1051072000480 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1051072000481 PRD domain; Region: PRD; pfam00874 1051072000482 PRD domain; Region: PRD; pfam00874 1051072000483 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 1051072000484 active site 1051072000485 P-loop; other site 1051072000486 phosphorylation site [posttranslational modification] 1051072000487 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1051072000488 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1051072000489 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1051072000490 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1051072000491 Walker A/P-loop; other site 1051072000492 ATP binding site [chemical binding]; other site 1051072000493 Q-loop/lid; other site 1051072000494 ABC transporter signature motif; other site 1051072000495 Walker B; other site 1051072000496 D-loop; other site 1051072000497 H-loop/switch region; other site 1051072000498 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; cl15354 1051072000499 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 1051072000500 dimer interface [polypeptide binding]; other site 1051072000501 conserved gate region; other site 1051072000502 putative PBP binding loops; other site 1051072000503 ABC-ATPase subunit interface; other site 1051072000504 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1051072000505 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1051072000506 DNA polymerase I; Provisional; Region: PRK05755 1051072000507 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1051072000508 active site 1051072000509 metal binding site 1 [ion binding]; metal-binding site 1051072000510 putative 5' ssDNA interaction site; other site 1051072000511 metal binding site 3; metal-binding site 1051072000512 metal binding site 2 [ion binding]; metal-binding site 1051072000513 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1051072000514 putative DNA binding site [nucleotide binding]; other site 1051072000515 putative metal binding site [ion binding]; other site 1051072000516 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 1051072000517 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1051072000518 active site 1051072000519 DNA binding site [nucleotide binding] 1051072000520 catalytic site [active] 1051072000521 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1051072000522 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1051072000523 metal binding site 2 [ion binding]; metal-binding site 1051072000524 putative DNA binding helix; other site 1051072000525 metal binding site 1 [ion binding]; metal-binding site 1051072000526 dimer interface [polypeptide binding]; other site 1051072000527 structural Zn2+ binding site [ion binding]; other site 1051072000528 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1051072000529 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 1051072000530 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 1051072000531 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1051072000532 Protein of unknown function (DUF975); Region: DUF975; pfam06161 1051072000533 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1051072000534 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1051072000535 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072000536 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072000537 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 1051072000538 CHY zinc finger; Region: zf-CHY; pfam05495 1051072000539 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1051072000540 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1051072000541 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 1051072000542 nucleoside/Zn binding site; other site 1051072000543 dimer interface [polypeptide binding]; other site 1051072000544 catalytic motif [active] 1051072000545 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 1051072000546 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1051072000547 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1051072000548 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1051072000549 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1051072000550 DXD motif; other site 1051072000551 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1051072000552 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1051072000553 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1051072000554 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1051072000555 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1051072000556 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1051072000557 active site 1051072000558 tetramer interface; other site 1051072000559 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1051072000560 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1051072000561 Substrate binding site; other site 1051072000562 Mg++ binding site; other site 1051072000563 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 1051072000564 active site 1051072000565 substrate binding site [chemical binding]; other site 1051072000566 CoA binding site [chemical binding]; other site 1051072000567 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1051072000568 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 1051072000569 active site 1051072000570 dimer interface [polypeptide binding]; other site 1051072000571 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 1051072000572 dimer interface [polypeptide binding]; other site 1051072000573 active site 1051072000574 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 1051072000575 classical (c) SDRs; Region: SDR_c; cd05233 1051072000576 NAD(P) binding site [chemical binding]; other site 1051072000577 active site 1051072000578 putative frv operon regulatory protein; Provisional; Region: PRK09863 1051072000579 HTH domain; Region: HTH_11; pfam08279 1051072000580 PRD domain; Region: PRD; pfam00874 1051072000581 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 1051072000582 active site 1051072000583 P-loop; other site 1051072000584 phosphorylation site [posttranslational modification] 1051072000585 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 1051072000586 active site 1051072000587 phosphorylation site [posttranslational modification] 1051072000588 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 1051072000589 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 1051072000590 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1051072000591 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 1051072000592 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1051072000593 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 1051072000594 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1051072000595 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1051072000596 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1051072000597 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 1051072000598 Rhomboid family; Region: Rhomboid; pfam01694 1051072000599 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1051072000600 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1051072000601 active site 1051072000602 tetramer interface; other site 1051072000603 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1051072000604 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1051072000605 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1051072000606 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1051072000607 MarR family; Region: MarR_2; pfam12802 1051072000608 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1051072000609 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1051072000610 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072000611 Walker A/P-loop; other site 1051072000612 ATP binding site [chemical binding]; other site 1051072000613 Q-loop/lid; other site 1051072000614 ABC transporter signature motif; other site 1051072000615 Walker B; other site 1051072000616 D-loop; other site 1051072000617 H-loop/switch region; other site 1051072000618 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1051072000619 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1051072000620 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1051072000621 Walker A/P-loop; other site 1051072000622 ATP binding site [chemical binding]; other site 1051072000623 Q-loop/lid; other site 1051072000624 ABC transporter signature motif; other site 1051072000625 Walker B; other site 1051072000626 D-loop; other site 1051072000627 H-loop/switch region; other site 1051072000628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1051072000629 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1051072000630 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1051072000631 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1051072000632 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1051072000633 trimer interface [polypeptide binding]; other site 1051072000634 active site 1051072000635 DNA repair protein RadA; Provisional; Region: PRK11823 1051072000636 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 1051072000637 Walker A motif/ATP binding site; other site 1051072000638 ATP binding site [chemical binding]; other site 1051072000639 Walker B motif; other site 1051072000640 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1051072000641 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 1051072000642 active site clefts [active] 1051072000643 zinc binding site [ion binding]; other site 1051072000644 dimer interface [polypeptide binding]; other site 1051072000645 Uncharacterized conserved protein [Function unknown]; Region: COG2013 1051072000646 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1051072000647 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1051072000648 active site 1051072000649 HIGH motif; other site 1051072000650 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1051072000651 active site 1051072000652 KMSKS motif; other site 1051072000653 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1051072000654 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 1051072000655 ATP binding site [chemical binding]; other site 1051072000656 Mg2+ binding site [ion binding]; other site 1051072000657 G-X-G motif; other site 1051072000658 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1051072000659 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1051072000660 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 1051072000661 active site 1051072000662 phosphorylation site [posttranslational modification] 1051072000663 intermolecular recognition site; other site 1051072000664 dimerization interface [polypeptide binding]; other site 1051072000665 LytTr DNA-binding domain; Region: LytTR; pfam04397 1051072000666 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1051072000667 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1051072000668 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1051072000669 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1051072000670 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 1051072000671 G-X-X-G motif; other site 1051072000672 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 1051072000673 RxxxH motif; other site 1051072000674 LXG domain of WXG superfamily; Region: LXG; pfam04740 1051072000675 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 1051072000676 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1051072000677 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 1051072000678 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1051072000679 putative active site cavity [active] 1051072000680 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1051072000681 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1051072000682 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; cl00164 1051072000683 active site turn [active] 1051072000684 phosphorylation site [posttranslational modification] 1051072000685 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1051072000686 HPr interaction site; other site 1051072000687 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1051072000688 active site 1051072000689 phosphorylation site [posttranslational modification] 1051072000690 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1051072000691 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 1051072000692 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1051072000693 putative active site cavity [active] 1051072000694 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1051072000695 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1051072000696 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 1051072000697 dimer interface [polypeptide binding]; other site 1051072000698 conserved gate region; other site 1051072000699 putative PBP binding loops; other site 1051072000700 ABC-ATPase subunit interface; other site 1051072000701 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1051072000702 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 1051072000703 dimer interface [polypeptide binding]; other site 1051072000704 conserved gate region; other site 1051072000705 putative PBP binding loops; other site 1051072000706 ABC-ATPase subunit interface; other site 1051072000707 Domain of unknown function (DUF386); Region: DUF386; cl01047 1051072000708 Protein of unknown function, DUF624; Region: DUF624; pfam04854 1051072000709 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1051072000710 Class I aldolases; Region: Aldolase_Class_I; cl17187 1051072000711 catalytic residue [active] 1051072000712 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1051072000713 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1051072000714 nucleotide binding site [chemical binding]; other site 1051072000715 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 1051072000716 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1051072000717 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1051072000718 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1051072000719 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 1051072000720 putative active site [active] 1051072000721 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1051072000722 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1051072000723 active site 1051072000724 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1051072000725 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 1051072000726 putative active site [active] 1051072000727 putative metal binding site [ion binding]; other site 1051072000728 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1051072000729 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1051072000730 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 1051072000731 S-adenosylmethionine binding site [chemical binding]; other site 1051072000732 GTPase RsgA; Reviewed; Region: PRK00098 1051072000733 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 1051072000734 RNA binding site [nucleotide binding]; other site 1051072000735 homodimer interface [polypeptide binding]; other site 1051072000736 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1051072000737 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1051072000738 GTP/Mg2+ binding site [chemical binding]; other site 1051072000739 G4 box; other site 1051072000740 G1 box; other site 1051072000741 Switch I region; other site 1051072000742 G2 box; other site 1051072000743 G3 box; other site 1051072000744 Switch II region; other site 1051072000745 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1051072000746 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 1051072000747 substrate binding site [chemical binding]; other site 1051072000748 hexamer interface [polypeptide binding]; other site 1051072000749 metal binding site [ion binding]; metal-binding site 1051072000750 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1051072000751 Thiamine pyrophosphokinase; Region: TPK; cd07995 1051072000752 active site 1051072000753 dimerization interface [polypeptide binding]; other site 1051072000754 thiamine binding site [chemical binding]; other site 1051072000755 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1051072000756 RmuC family; Region: RmuC; pfam02646 1051072000757 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 1051072000758 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 1051072000759 generic binding surface II; other site 1051072000760 generic binding surface I; other site 1051072000761 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1051072000762 Zn2+ binding site [ion binding]; other site 1051072000763 Mg2+ binding site [ion binding]; other site 1051072000764 pur operon repressor; Provisional; Region: PRK09213 1051072000765 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1051072000766 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1051072000767 active site 1051072000768 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 1051072000769 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 1051072000770 S17 interaction site [polypeptide binding]; other site 1051072000771 S8 interaction site; other site 1051072000772 16S rRNA interaction site [nucleotide binding]; other site 1051072000773 streptomycin interaction site [chemical binding]; other site 1051072000774 23S rRNA interaction site [nucleotide binding]; other site 1051072000775 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1051072000776 30S ribosomal protein S7; Validated; Region: PRK05302 1051072000777 elongation factor G; Reviewed; Region: PRK00007 1051072000778 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1051072000779 G1 box; other site 1051072000780 putative GEF interaction site [polypeptide binding]; other site 1051072000781 GTP/Mg2+ binding site [chemical binding]; other site 1051072000782 Switch I region; other site 1051072000783 G2 box; other site 1051072000784 G3 box; other site 1051072000785 Switch II region; other site 1051072000786 G4 box; other site 1051072000787 G5 box; other site 1051072000788 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 1051072000789 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 1051072000790 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 1051072000791 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1051072000792 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1051072000793 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1051072000794 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 1051072000795 active site 1051072000796 motif I; other site 1051072000797 motif II; other site 1051072000798 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1051072000799 Phosphoglycerate kinase; Region: PGK; pfam00162 1051072000800 substrate binding site [chemical binding]; other site 1051072000801 hinge regions; other site 1051072000802 ADP binding site [chemical binding]; other site 1051072000803 catalytic site [active] 1051072000804 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1051072000805 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1051072000806 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1051072000807 DNA binding residues [nucleotide binding] 1051072000808 putative dimer interface [polypeptide binding]; other site 1051072000809 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1051072000810 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1051072000811 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1051072000812 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1051072000813 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1051072000814 peptide binding site [polypeptide binding]; other site 1051072000815 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1051072000816 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 1051072000817 dimer interface [polypeptide binding]; other site 1051072000818 conserved gate region; other site 1051072000819 putative PBP binding loops; other site 1051072000820 ABC-ATPase subunit interface; other site 1051072000821 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1051072000822 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1051072000823 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 1051072000824 dimer interface [polypeptide binding]; other site 1051072000825 conserved gate region; other site 1051072000826 putative PBP binding loops; other site 1051072000827 ABC-ATPase subunit interface; other site 1051072000828 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1051072000829 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1051072000830 Walker A/P-loop; other site 1051072000831 ATP binding site [chemical binding]; other site 1051072000832 Q-loop/lid; other site 1051072000833 ABC transporter signature motif; other site 1051072000834 Walker B; other site 1051072000835 D-loop; other site 1051072000836 H-loop/switch region; other site 1051072000837 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1051072000838 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1051072000839 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1051072000840 Walker A/P-loop; other site 1051072000841 ATP binding site [chemical binding]; other site 1051072000842 Q-loop/lid; other site 1051072000843 ABC transporter signature motif; other site 1051072000844 Walker B; other site 1051072000845 D-loop; other site 1051072000846 H-loop/switch region; other site 1051072000847 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1051072000848 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1051072000849 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1051072000850 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1051072000851 hypothetical protein; Provisional; Region: PRK13667 1051072000852 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1051072000853 Glycoprotease family; Region: Peptidase_M22; pfam00814 1051072000854 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1051072000855 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1051072000856 Coenzyme A binding pocket [chemical binding]; other site 1051072000857 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1051072000858 UGMP family protein; Validated; Region: PRK09604 1051072000859 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1051072000860 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1051072000861 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 1051072000862 putative active site [active] 1051072000863 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1051072000864 HI0933-like protein; Region: HI0933_like; pfam03486 1051072000865 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 1051072000866 HTH domain; Region: HTH_11; cl17392 1051072000867 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1051072000868 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1051072000869 active site 1051072000870 catalytic site [active] 1051072000871 substrate binding site [chemical binding]; other site 1051072000872 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1051072000873 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1051072000874 DNA binding residues [nucleotide binding] 1051072000875 dimer interface [polypeptide binding]; other site 1051072000876 hypothetical protein; Validated; Region: PRK00153 1051072000877 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1051072000878 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 1051072000879 active site 1051072000880 phosphorylation site [posttranslational modification] 1051072000881 intermolecular recognition site; other site 1051072000882 dimerization interface [polypeptide binding]; other site 1051072000883 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 1051072000884 DNA binding site [nucleotide binding] 1051072000885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1051072000886 HAMP domain; Region: HAMP; pfam00672 1051072000887 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 1051072000888 dimer interface [polypeptide binding]; other site 1051072000889 phosphorylation site [posttranslational modification] 1051072000890 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 1051072000891 ATP binding site [chemical binding]; other site 1051072000892 Mg2+ binding site [ion binding]; other site 1051072000893 G-X-G motif; other site 1051072000894 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 1051072000895 TQXA domain; Region: TQXA_dom; TIGR03934 1051072000896 Fibronectin binding repeat; Region: Fn_bind; pfam02986 1051072000897 Fibronectin binding repeat; Region: Fn_bind; pfam02986 1051072000898 Fibronectin binding repeat; Region: Fn_bind; pfam02986 1051072000899 Fibronectin binding repeat; Region: Fn_bind; pfam02986 1051072000900 Fibronectin binding repeat; Region: Fn_bind; pfam02986 1051072000901 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1051072000902 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 1051072000903 Mga helix-turn-helix domain; Region: Mga; pfam05043 1051072000904 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 1051072000905 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1051072000906 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 1051072000907 non-specific DNA binding site [nucleotide binding]; other site 1051072000908 salt bridge; other site 1051072000909 sequence-specific DNA binding site [nucleotide binding]; other site 1051072000910 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1051072000911 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 1051072000912 non-specific DNA binding site [nucleotide binding]; other site 1051072000913 salt bridge; other site 1051072000914 sequence-specific DNA binding site [nucleotide binding]; other site 1051072000915 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1051072000916 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 1051072000917 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 1051072000918 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1051072000919 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1051072000920 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; cl17320 1051072000921 non-specific DNA interactions [nucleotide binding]; other site 1051072000922 DNA binding site [nucleotide binding] 1051072000923 sequence specific DNA binding site [nucleotide binding]; other site 1051072000924 putative cAMP binding site [chemical binding]; other site 1051072000925 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 1051072000926 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1051072000927 putative substrate translocation pore; other site 1051072000928 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 1051072000929 Ligand Binding Site [chemical binding]; other site 1051072000930 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 1051072000931 amphipathic channel; other site 1051072000932 Asn-Pro-Ala signature motifs; other site 1051072000933 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 1051072000934 active site 1051072000935 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 1051072000936 active site 1051072000937 Beta-lactamase; Region: Beta-lactamase; pfam00144 1051072000938 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1051072000939 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1051072000940 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1051072000941 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1051072000942 active site 1051072000943 DNA polymerase IV; Validated; Region: PRK02406 1051072000944 DNA binding site [nucleotide binding] 1051072000945 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072000946 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072000947 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1051072000948 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 1051072000949 DNA binding site [nucleotide binding] 1051072000950 AAA domain; Region: AAA_30; pfam13604 1051072000951 Family description; Region: UvrD_C_2; pfam13538 1051072000952 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1051072000953 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 1051072000954 Catalytic site [active] 1051072000955 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 1051072000956 ribonuclease HIII; Provisional; Region: PRK00996 1051072000957 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1051072000958 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1051072000959 RNA/DNA hybrid binding site [nucleotide binding]; other site 1051072000960 active site 1051072000961 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1051072000962 Colicin V production protein; Region: Colicin_V; pfam02674 1051072000963 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 1051072000964 MutS domain III; Region: MutS_III; pfam05192 1051072000965 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1051072000966 Walker A/P-loop; other site 1051072000967 ATP binding site [chemical binding]; other site 1051072000968 Q-loop/lid; other site 1051072000969 ABC transporter signature motif; other site 1051072000970 Walker B; other site 1051072000971 D-loop; other site 1051072000972 H-loop/switch region; other site 1051072000973 Smr domain; Region: Smr; pfam01713 1051072000974 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1051072000975 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1051072000976 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1051072000977 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1051072000978 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 1051072000979 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1051072000980 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1051072000981 minor groove reading motif; other site 1051072000982 helix-hairpin-helix signature motif; other site 1051072000983 substrate binding pocket [chemical binding]; other site 1051072000984 active site 1051072000985 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 1051072000986 DNA binding and oxoG recognition site [nucleotide binding] 1051072000987 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 1051072000988 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1051072000989 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1051072000990 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 1051072000991 ssDNA binding site [nucleotide binding]; other site 1051072000992 dimer interface [polypeptide binding]; other site 1051072000993 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1051072000994 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1051072000995 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 1051072000996 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1051072000997 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1051072000998 Cl binding site [ion binding]; other site 1051072000999 oligomer interface [polypeptide binding]; other site 1051072001000 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1051072001001 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1051072001002 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1051072001003 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1051072001004 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1051072001005 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1051072001006 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 1051072001007 active site 1051072001008 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 1051072001009 catalytic motif [active] 1051072001010 Zn binding site [ion binding]; other site 1051072001011 elongation factor P; Validated; Region: PRK00529 1051072001012 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1051072001013 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 1051072001014 RNA binding site [nucleotide binding]; other site 1051072001015 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 1051072001016 RNA binding site [nucleotide binding]; other site 1051072001017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1051072001018 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1051072001019 putative RNA binding site [nucleotide binding]; other site 1051072001020 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1051072001021 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1051072001022 DNA binding site [nucleotide binding] 1051072001023 domain linker motif; other site 1051072001024 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 1051072001025 dimerization interface [polypeptide binding]; other site 1051072001026 ligand binding site [chemical binding]; other site 1051072001027 sodium binding site [ion binding]; other site 1051072001028 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 1051072001029 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1051072001030 substrate binding [chemical binding]; other site 1051072001031 active site 1051072001032 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1051072001033 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1051072001034 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 1051072001035 active site turn [active] 1051072001036 phosphorylation site [posttranslational modification] 1051072001037 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1051072001038 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1051072001039 HPr interaction site; other site 1051072001040 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1051072001041 active site 1051072001042 phosphorylation site [posttranslational modification] 1051072001043 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain; Region: GH18_EndoS-like; cd06542 1051072001044 active site 1051072001045 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1051072001046 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1051072001047 nucleotide binding site [chemical binding]; other site 1051072001048 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1051072001049 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1051072001050 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1051072001051 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1051072001052 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; cl17351 1051072001053 nucleotide binding region [chemical binding]; other site 1051072001054 ATP-binding site [chemical binding]; other site 1051072001055 SEC-C motif; Region: SEC-C; pfam02810 1051072001056 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1051072001057 alanine racemase; Reviewed; Region: alr; PRK00053 1051072001058 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1051072001059 active site 1051072001060 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1051072001061 dimer interface [polypeptide binding]; other site 1051072001062 substrate binding site [chemical binding]; other site 1051072001063 catalytic residues [active] 1051072001064 Surface antigen [General function prediction only]; Region: COG3942 1051072001065 CHAP domain; Region: CHAP; pfam05257 1051072001066 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 1051072001067 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 1051072001068 heme-binding site [chemical binding]; other site 1051072001069 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1051072001070 Leucine rich repeat; Region: LRR_8; pfam13855 1051072001071 Leucine rich repeat; Region: LRR_8; pfam13855 1051072001072 Leucine rich repeat; Region: LRR_8; pfam13855 1051072001073 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 1051072001074 heme-binding site [chemical binding]; other site 1051072001075 Cell surface heme-binding protein Shp; Region: HemeBinding_Shp; pfam11545 1051072001076 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1051072001077 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 1051072001078 ABC-ATPase subunit interface; other site 1051072001079 dimer interface [polypeptide binding]; other site 1051072001080 putative PBP binding regions; other site 1051072001081 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1051072001082 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1051072001083 Walker A/P-loop; other site 1051072001084 ATP binding site [chemical binding]; other site 1051072001085 Q-loop/lid; other site 1051072001086 ABC transporter signature motif; other site 1051072001087 Walker B; other site 1051072001088 D-loop; other site 1051072001089 H-loop/switch region; other site 1051072001090 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 1051072001091 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1051072001092 Walker A/P-loop; other site 1051072001093 ATP binding site [chemical binding]; other site 1051072001094 Q-loop/lid; other site 1051072001095 ABC transporter signature motif; other site 1051072001096 Walker B; other site 1051072001097 D-loop; other site 1051072001098 H-loop/switch region; other site 1051072001099 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1051072001100 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1051072001101 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1051072001102 Walker A/P-loop; other site 1051072001103 ATP binding site [chemical binding]; other site 1051072001104 Q-loop/lid; other site 1051072001105 ABC transporter signature motif; other site 1051072001106 Walker B; other site 1051072001107 D-loop; other site 1051072001108 H-loop/switch region; other site 1051072001109 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 1051072001110 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1051072001111 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1051072001112 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1051072001113 Walker A/P-loop; other site 1051072001114 ATP binding site [chemical binding]; other site 1051072001115 Q-loop/lid; other site 1051072001116 ABC transporter signature motif; other site 1051072001117 Walker B; other site 1051072001118 D-loop; other site 1051072001119 H-loop/switch region; other site 1051072001120 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072001121 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1051072001122 Walker A/P-loop; other site 1051072001123 ATP binding site [chemical binding]; other site 1051072001124 Q-loop/lid; other site 1051072001125 ABC transporter signature motif; other site 1051072001126 Walker B; other site 1051072001127 D-loop; other site 1051072001128 H-loop/switch region; other site 1051072001129 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1051072001130 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 1051072001131 generic binding surface II; other site 1051072001132 ssDNA binding site; other site 1051072001133 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 1051072001134 ATP binding site [chemical binding]; other site 1051072001135 putative Mg++ binding site [ion binding]; other site 1051072001136 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 1051072001137 nucleotide binding region [chemical binding]; other site 1051072001138 ATP-binding site [chemical binding]; other site 1051072001139 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1051072001140 active site 1051072001141 homodimer interface [polypeptide binding]; other site 1051072001142 homotetramer interface [polypeptide binding]; other site 1051072001143 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 1051072001144 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1051072001145 active site 1051072001146 motif I; other site 1051072001147 motif II; other site 1051072001148 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 1051072001149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4696 1051072001150 metal binding site [ion binding]; metal-binding site 1051072001151 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 1051072001152 Ligand Binding Site [chemical binding]; other site 1051072001153 aminotransferase AlaT; Validated; Region: PRK09265 1051072001154 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 1051072001155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1051072001156 homodimer interface [polypeptide binding]; other site 1051072001157 catalytic residue [active] 1051072001158 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 1051072001159 CodY GAF-like domain; Region: CodY; pfam06018 1051072001160 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 1051072001161 dimerization interface [polypeptide binding]; other site 1051072001162 putative Zn2+ binding site [ion binding]; other site 1051072001163 putative DNA binding site [nucleotide binding]; other site 1051072001164 Isochorismatase family; Region: Isochorismatase; pfam00857 1051072001165 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 1051072001166 catalytic triad [active] 1051072001167 conserved cis-peptide bond; other site 1051072001168 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1051072001169 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1051072001170 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1051072001171 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1051072001172 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1051072001173 GatB domain; Region: GatB_Yqey; pfam02637 1051072001174 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1051072001175 EamA-like transporter family; Region: EamA; pfam00892 1051072001176 Predicted membrane protein [Function unknown]; Region: COG2261 1051072001177 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1051072001178 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1051072001179 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1051072001180 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 1051072001181 catalytic core [active] 1051072001182 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 1051072001183 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1051072001184 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1051072001185 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1051072001186 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1051072001187 GrpE; Region: GrpE; pfam01025 1051072001188 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 1051072001189 dimer interface [polypeptide binding]; other site 1051072001190 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1051072001191 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1051072001192 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1051072001193 nucleotide binding site [chemical binding]; other site 1051072001194 NEF interaction site [polypeptide binding]; other site 1051072001195 SBD interface [polypeptide binding]; other site 1051072001196 chaperone protein DnaJ; Provisional; Region: PRK14276 1051072001197 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 1051072001198 HSP70 interaction site [polypeptide binding]; other site 1051072001199 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1051072001200 substrate binding site [polypeptide binding]; other site 1051072001201 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1051072001202 Zn binding sites [ion binding]; other site 1051072001203 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1051072001204 dimer interface [polypeptide binding]; other site 1051072001205 enoyl-CoA hydratase; Provisional; Region: PRK07260 1051072001206 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 1051072001207 substrate binding site [chemical binding]; other site 1051072001208 oxyanion hole (OAH) forming residues; other site 1051072001209 trimer interface [polypeptide binding]; other site 1051072001210 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1051072001211 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 1051072001212 putative Zn2+ binding site [ion binding]; other site 1051072001213 putative DNA binding site [nucleotide binding]; other site 1051072001214 dimerization interface [polypeptide binding]; other site 1051072001215 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1051072001216 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 1051072001217 dimer interface [polypeptide binding]; other site 1051072001218 active site 1051072001219 CoA binding pocket [chemical binding]; other site 1051072001220 acyl carrier protein; Provisional; Region: acpP; PRK00982 1051072001221 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1051072001222 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1051072001223 FMN binding site [chemical binding]; other site 1051072001224 substrate binding site [chemical binding]; other site 1051072001225 putative catalytic residue [active] 1051072001226 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1051072001227 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1051072001228 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1051072001229 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1051072001230 NAD(P) binding site [chemical binding]; other site 1051072001231 homotetramer interface [polypeptide binding]; other site 1051072001232 homodimer interface [polypeptide binding]; other site 1051072001233 active site 1051072001234 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1051072001235 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 1051072001236 dimer interface [polypeptide binding]; other site 1051072001237 active site 1051072001238 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1051072001239 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 1051072001240 carboxyltransferase (CT) interaction site; other site 1051072001241 biotinylation site [posttranslational modification]; other site 1051072001242 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 1051072001243 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1051072001244 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1051072001245 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1051072001246 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1051072001247 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1051072001248 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1051072001249 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 1051072001250 seryl-tRNA synthetase; Provisional; Region: PRK05431 1051072001251 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1051072001252 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 1051072001253 dimer interface [polypeptide binding]; other site 1051072001254 active site 1051072001255 motif 1; other site 1051072001256 motif 2; other site 1051072001257 motif 3; other site 1051072001258 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1051072001259 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1051072001260 Domain of unknown function (DUF956); Region: DUF956; cl01917 1051072001261 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1051072001262 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1051072001263 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1051072001264 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 1051072001265 active pocket/dimerization site; other site 1051072001266 active site 1051072001267 phosphorylation site [posttranslational modification] 1051072001268 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 1051072001269 active site 1051072001270 phosphorylation site [posttranslational modification] 1051072001271 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1051072001272 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 1051072001273 active site 1051072001274 motif I; other site 1051072001275 motif II; other site 1051072001276 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1051072001277 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1051072001278 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1051072001279 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1051072001280 Coenzyme A binding pocket [chemical binding]; other site 1051072001281 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1051072001282 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1051072001283 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 1051072001284 HIT family signature motif; other site 1051072001285 catalytic residue [active] 1051072001286 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1051072001287 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1051072001288 Walker A/P-loop; other site 1051072001289 ATP binding site [chemical binding]; other site 1051072001290 Q-loop/lid; other site 1051072001291 ABC transporter signature motif; other site 1051072001292 Walker B; other site 1051072001293 D-loop; other site 1051072001294 H-loop/switch region; other site 1051072001295 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 1051072001296 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 1051072001297 Thiamine kinase and related kinases [Coenzyme transport and metabolism]; Region: ycfN; COG0510 1051072001298 Phosphotransferase enzyme family; Region: APH; pfam01636 1051072001299 substrate binding site [chemical binding]; other site 1051072001300 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 1051072001301 S-adenosylmethionine binding site [chemical binding]; other site 1051072001302 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1051072001303 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1051072001304 putative oligomer interface [polypeptide binding]; other site 1051072001305 putative RNA binding site [nucleotide binding]; other site 1051072001306 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1051072001307 NusA N-terminal domain; Region: NusA_N; pfam08529 1051072001308 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 1051072001309 RNA binding site [nucleotide binding]; other site 1051072001310 homodimer interface [polypeptide binding]; other site 1051072001311 NusA-like KH domain; Region: KH_5; pfam13184 1051072001312 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 1051072001313 G-X-X-G motif; other site 1051072001314 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 1051072001315 putative RNA binding cleft [nucleotide binding]; other site 1051072001316 hypothetical protein; Provisional; Region: PRK07283 1051072001317 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1051072001318 translation initiation factor IF-2; Region: IF-2; TIGR00487 1051072001319 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1051072001320 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1051072001321 G1 box; other site 1051072001322 putative GEF interaction site [polypeptide binding]; other site 1051072001323 GTP/Mg2+ binding site [chemical binding]; other site 1051072001324 Switch I region; other site 1051072001325 G2 box; other site 1051072001326 G3 box; other site 1051072001327 Switch II region; other site 1051072001328 G4 box; other site 1051072001329 G5 box; other site 1051072001330 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 1051072001331 Translation-initiation factor 2; Region: IF-2; pfam11987 1051072001332 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 1051072001333 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1051072001334 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072001335 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072001336 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1051072001337 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1051072001338 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1051072001339 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1051072001340 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1051072001341 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 1051072001342 metal-binding site [ion binding] 1051072001343 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1051072001344 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1051072001345 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 1051072001346 LemA family; Region: LemA; cl00742 1051072001347 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1051072001348 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1051072001349 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1051072001350 galactose-6-phosphate isomerase subunit LacA; Provisional; Region: PRK12613 1051072001351 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK12615 1051072001352 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 1051072001353 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 1051072001354 putative substrate binding site [chemical binding]; other site 1051072001355 putative ATP binding site [chemical binding]; other site 1051072001356 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK04161 1051072001357 CAT RNA binding domain; Region: CAT_RBD; smart01061 1051072001358 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1051072001359 PRD domain; Region: PRD; pfam00874 1051072001360 PRD domain; Region: PRD; pfam00874 1051072001361 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 1051072001362 methionine cluster; other site 1051072001363 active site 1051072001364 phosphorylation site [posttranslational modification] 1051072001365 metal binding site [ion binding]; metal-binding site 1051072001366 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 1051072001367 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1051072001368 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 1051072001369 active site 1051072001370 P-loop; other site 1051072001371 phosphorylation site [posttranslational modification] 1051072001372 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 1051072001373 beta-galactosidase; Region: BGL; TIGR03356 1051072001374 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 1051072001375 Predicted membrane protein [Function unknown]; Region: COG2860 1051072001376 UPF0126 domain; Region: UPF0126; pfam03458 1051072001377 UPF0126 domain; Region: UPF0126; pfam03458 1051072001378 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 1051072001379 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1051072001380 active site 1051072001381 motif I; other site 1051072001382 motif II; other site 1051072001383 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 1051072001384 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1051072001385 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1051072001386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 1051072001387 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1051072001388 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1051072001389 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1051072001390 DNA binding site [nucleotide binding] 1051072001391 domain linker motif; other site 1051072001392 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1051072001393 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1051072001394 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 1051072001395 substrate binding site [chemical binding]; other site 1051072001396 dimer interface [polypeptide binding]; other site 1051072001397 ATP binding site [chemical binding]; other site 1051072001398 D-ribose pyranase; Provisional; Region: PRK11797 1051072001399 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1051072001400 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1051072001401 Walker A/P-loop; other site 1051072001402 ATP binding site [chemical binding]; other site 1051072001403 Q-loop/lid; other site 1051072001404 ABC transporter signature motif; other site 1051072001405 Walker B; other site 1051072001406 D-loop; other site 1051072001407 H-loop/switch region; other site 1051072001408 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1051072001409 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 1051072001410 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1051072001411 TM-ABC transporter signature motif; other site 1051072001412 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1051072001413 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1051072001414 ligand binding site [chemical binding]; other site 1051072001415 dimerization interface [polypeptide binding]; other site 1051072001416 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1051072001417 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1051072001418 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1051072001419 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1051072001420 PhoU domain; Region: PhoU; pfam01895 1051072001421 PhoU domain; Region: PhoU; pfam01895 1051072001422 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1051072001423 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 1051072001424 active site 1051072001425 dimer interface [polypeptide binding]; other site 1051072001426 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 1051072001427 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1051072001428 active site 1051072001429 catalytic tetrad [active] 1051072001430 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1051072001431 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1051072001432 Walker A/P-loop; other site 1051072001433 ATP binding site [chemical binding]; other site 1051072001434 Q-loop/lid; other site 1051072001435 ABC transporter signature motif; other site 1051072001436 Walker B; other site 1051072001437 D-loop; other site 1051072001438 H-loop/switch region; other site 1051072001439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 1051072001440 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1051072001441 dimer interface [polypeptide binding]; other site 1051072001442 motif 1; other site 1051072001443 active site 1051072001444 motif 2; other site 1051072001445 motif 3; other site 1051072001446 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1051072001447 DALR anticodon binding domain; Region: DALR_1; pfam05746 1051072001448 hypothetical protein; Provisional; Region: PRK02539 1051072001449 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1051072001450 putative FMN binding site [chemical binding]; other site 1051072001451 NADPH bind site [chemical binding]; other site 1051072001452 thiazole/oxazole-forming peptide maturase, SagC family component; Region: cyclo_dehy_ocin; TIGR03603 1051072001453 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 1051072001454 YcaO-like family; Region: YcaO; pfam02624 1051072001455 CAAX protease self-immunity; Region: Abi; pfam02517 1051072001456 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1051072001457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072001458 Walker A/P-loop; other site 1051072001459 ATP binding site [chemical binding]; other site 1051072001460 Q-loop/lid; other site 1051072001461 ABC transporter signature motif; other site 1051072001462 Walker B; other site 1051072001463 D-loop; other site 1051072001464 H-loop/switch region; other site 1051072001465 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1051072001466 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1051072001467 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1051072001468 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1051072001469 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 1051072001470 TQXA domain; Region: TQXA_dom; TIGR03934 1051072001471 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 1051072001472 TQXA domain; Region: TQXA_dom; TIGR03934 1051072001473 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1051072001474 CutC family; Region: CutC; pfam03932 1051072001475 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1051072001476 Coenzyme A binding pocket [chemical binding]; other site 1051072001477 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1051072001478 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 1051072001479 DNA binding site [nucleotide binding] 1051072001480 active site 1051072001481 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 1051072001482 ArsC family; Region: ArsC; pfam03960 1051072001483 putative ArsC-like catalytic residues; other site 1051072001484 putative TRX-like catalytic residues [active] 1051072001485 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1051072001486 active site 1051072001487 putative catalytic site [active] 1051072001488 DNA binding site [nucleotide binding] 1051072001489 putative phosphate binding site [ion binding]; other site 1051072001490 metal binding site A [ion binding]; metal-binding site 1051072001491 AP binding site [nucleotide binding]; other site 1051072001492 metal binding site B [ion binding]; metal-binding site 1051072001493 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1051072001494 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 1051072001495 putative active site [active] 1051072001496 catalytic triad [active] 1051072001497 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 1051072001498 putative integrin binding motif; other site 1051072001499 PA/protease domain interface [polypeptide binding]; other site 1051072001500 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 1051072001501 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 1051072001502 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1051072001503 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1051072001504 Predicted membrane protein [Function unknown]; Region: COG3619 1051072001505 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1051072001506 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1051072001507 active site 1051072001508 HIGH motif; other site 1051072001509 KMSKS motif; other site 1051072001510 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1051072001511 tRNA binding surface [nucleotide binding]; other site 1051072001512 anticodon binding site; other site 1051072001513 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 1051072001514 dimer interface [polypeptide binding]; other site 1051072001515 putative tRNA-binding site [nucleotide binding]; other site 1051072001516 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 1051072001517 non-specific DNA binding site [nucleotide binding]; other site 1051072001518 salt bridge; other site 1051072001519 sequence-specific DNA binding site [nucleotide binding]; other site 1051072001520 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1051072001521 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 1051072001522 HlyD family secretion protein; Region: HlyD_3; pfam13437 1051072001523 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1051072001524 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1051072001525 dimer interface [polypeptide binding]; other site 1051072001526 putative radical transfer pathway; other site 1051072001527 diiron center [ion binding]; other site 1051072001528 tyrosyl radical; other site 1051072001529 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1051072001530 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 1051072001531 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1051072001532 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1051072001533 active site 1051072001534 dimer interface [polypeptide binding]; other site 1051072001535 catalytic residues [active] 1051072001536 effector binding site; other site 1051072001537 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1051072001538 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1051072001539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 1051072001540 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1051072001541 type VII secretion protein EssB; Region: T7_EssB; TIGR03926 1051072001542 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 1051072001543 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 1051072001544 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1051072001545 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1051072001546 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 1051072001547 Protein of unknown function (DUF3130; Region: DUF3130; cl12867 1051072001548 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 1051072001549 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 1051072001550 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1051072001551 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 1051072001552 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 1051072001553 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 1051072001554 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1051072001555 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 1051072001556 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1051072001557 CRISPR-associated protein Cas4 (RecB family exonuclease) [Defense mechanisms]; Region: COG1468 1051072001558 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 1051072001559 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1051072001560 Helix-turn-helix domain; Region: HTH_20; pfam12840 1051072001561 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1051072001562 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1051072001563 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1051072001564 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1051072001565 catalytic residues [active] 1051072001566 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1051072001567 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1051072001568 SelR domain; Region: SelR; pfam01641 1051072001569 Response regulator receiver domain; Region: Response_reg; pfam00072 1051072001570 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 1051072001571 active site 1051072001572 phosphorylation site [posttranslational modification] 1051072001573 intermolecular recognition site; other site 1051072001574 dimerization interface [polypeptide binding]; other site 1051072001575 Helix-turn-helix domain; Region: HTH_18; pfam12833 1051072001576 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1051072001577 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1051072001578 Cache domain; Region: Cache_1; pfam02743 1051072001579 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 1051072001580 dimerization interface [polypeptide binding]; other site 1051072001581 Histidine kinase; Region: His_kinase; pfam06580 1051072001582 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 1051072001583 ATP binding site [chemical binding]; other site 1051072001584 Mg2+ binding site [ion binding]; other site 1051072001585 G-X-G motif; other site 1051072001586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1051072001587 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1051072001588 B3/4 domain; Region: B3_4; pfam03483 1051072001589 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 1051072001590 putative deacylase active site [active] 1051072001591 Arginine repressor [Transcription]; Region: ArgR; COG1438 1051072001592 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1051072001593 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1051072001594 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1051072001595 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 1051072001596 ligand binding site [chemical binding]; other site 1051072001597 flexible hinge region; other site 1051072001598 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 1051072001599 putative switch regulator; other site 1051072001600 non-specific DNA interactions [nucleotide binding]; other site 1051072001601 DNA binding site [nucleotide binding] 1051072001602 sequence specific DNA binding site [nucleotide binding]; other site 1051072001603 putative cAMP binding site [chemical binding]; other site 1051072001604 arginine deiminase; Provisional; Region: PRK01388 1051072001605 Autoinducer synthetase; Region: Autoind_synth; cl17404 1051072001606 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1051072001607 Coenzyme A binding pocket [chemical binding]; other site 1051072001608 ornithine carbamoyltransferase; Validated; Region: PRK02102 1051072001609 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1051072001610 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1051072001611 Predicted membrane protein [Function unknown]; Region: COG1288 1051072001612 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1051072001613 hypothetical protein; Provisional; Region: PRK07205 1051072001614 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1051072001615 active site 1051072001616 metal binding site [ion binding]; metal-binding site 1051072001617 carbamate kinase; Reviewed; Region: PRK12686 1051072001618 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 1051072001619 putative substrate binding site [chemical binding]; other site 1051072001620 nucleotide binding site [chemical binding]; other site 1051072001621 nucleotide binding site [chemical binding]; other site 1051072001622 homodimer interface [polypeptide binding]; other site 1051072001623 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 1051072001624 dimer interface [polypeptide binding]; other site 1051072001625 active site 1051072001626 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1051072001627 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 1051072001628 S-adenosylmethionine binding site [chemical binding]; other site 1051072001629 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1051072001630 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1051072001631 active site 1051072001632 (T/H)XGH motif; other site 1051072001633 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1051072001634 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 1051072001635 protein binding site [polypeptide binding]; other site 1051072001636 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 1051072001637 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 1051072001638 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 1051072001639 FeS/SAM binding site; other site 1051072001640 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1051072001641 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1051072001642 dimerization interface [polypeptide binding]; other site 1051072001643 DPS ferroxidase diiron center [ion binding]; other site 1051072001644 ion pore; other site 1051072001645 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 1051072001646 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1051072001647 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1051072001648 nucleotide binding site [chemical binding]; other site 1051072001649 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 1051072001650 active site residue [active] 1051072001651 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1051072001652 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1051072001653 G1 box; other site 1051072001654 putative GEF interaction site [polypeptide binding]; other site 1051072001655 GTP/Mg2+ binding site [chemical binding]; other site 1051072001656 Switch I region; other site 1051072001657 G2 box; other site 1051072001658 G3 box; other site 1051072001659 Switch II region; other site 1051072001660 G4 box; other site 1051072001661 G5 box; other site 1051072001662 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 1051072001663 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 1051072001664 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 1051072001665 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1051072001666 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1051072001667 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1051072001668 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1051072001669 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1051072001670 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 1051072001671 active site 1051072001672 homodimer interface [polypeptide binding]; other site 1051072001673 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1051072001674 Cell division protein FtsQ; Region: FtsQ; pfam03799 1051072001675 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1051072001676 Cell division protein FtsA; Region: FtsA; smart00842 1051072001677 Cell division protein FtsA; Region: FtsA; pfam14450 1051072001678 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 1051072001679 cell division protein FtsZ; Validated; Region: PRK09330 1051072001680 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 1051072001681 nucleotide binding site [chemical binding]; other site 1051072001682 SulA interaction site; other site 1051072001683 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1051072001684 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1051072001685 catalytic residue [active] 1051072001686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1051072001687 YGGT family; Region: YGGT; pfam02325 1051072001688 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1051072001689 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 1051072001690 RNA binding surface [nucleotide binding]; other site 1051072001691 DivIVA protein; Region: DivIVA; pfam05103 1051072001692 DivIVA domain; Region: DivI1A_domain; TIGR03544 1051072001693 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1051072001694 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1051072001695 active site 1051072001696 HIGH motif; other site 1051072001697 nucleotide binding site [chemical binding]; other site 1051072001698 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1051072001699 active site 1051072001700 KMSKS motif; other site 1051072001701 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1051072001702 tRNA binding surface [nucleotide binding]; other site 1051072001703 anticodon binding site; other site 1051072001704 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 1051072001705 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 1051072001706 nudix motif; other site 1051072001707 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 1051072001708 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1051072001709 Walker A motif; other site 1051072001710 ATP binding site [chemical binding]; other site 1051072001711 Walker B motif; other site 1051072001712 arginine finger; other site 1051072001713 UvrB/uvrC motif; Region: UVR; pfam02151 1051072001714 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 1051072001715 Walker A motif; other site 1051072001716 ATP binding site [chemical binding]; other site 1051072001717 Walker B motif; other site 1051072001718 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1051072001719 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 1051072001720 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1051072001721 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 1051072001722 dimer interface [polypeptide binding]; other site 1051072001723 conserved gate region; other site 1051072001724 putative PBP binding loops; other site 1051072001725 ABC-ATPase subunit interface; other site 1051072001726 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1051072001727 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1051072001728 Walker A/P-loop; other site 1051072001729 ATP binding site [chemical binding]; other site 1051072001730 Q-loop/lid; other site 1051072001731 ABC transporter signature motif; other site 1051072001732 Walker B; other site 1051072001733 D-loop; other site 1051072001734 H-loop/switch region; other site 1051072001735 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1051072001736 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1051072001737 active site 1051072001738 substrate binding site [chemical binding]; other site 1051072001739 metal binding site [ion binding]; metal-binding site 1051072001740 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 1051072001741 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1051072001742 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1051072001743 homodimer interface [polypeptide binding]; other site 1051072001744 NADP binding site [chemical binding]; other site 1051072001745 substrate binding site [chemical binding]; other site 1051072001746 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 1051072001747 putative substrate binding site [chemical binding]; other site 1051072001748 putative ATP binding site [chemical binding]; other site 1051072001749 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1051072001750 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 1051072001751 generic binding surface II; other site 1051072001752 generic binding surface I; other site 1051072001753 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1051072001754 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1051072001755 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1051072001756 substrate binding pocket [chemical binding]; other site 1051072001757 chain length determination region; other site 1051072001758 substrate-Mg2+ binding site; other site 1051072001759 catalytic residues [active] 1051072001760 aspartate-rich region 1; other site 1051072001761 active site lid residues [active] 1051072001762 aspartate-rich region 2; other site 1051072001763 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1051072001764 S4 RNA-binding domain; Region: S4; smart00363 1051072001765 RNA binding surface [nucleotide binding]; other site 1051072001766 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1051072001767 Arginine repressor [Transcription]; Region: ArgR; COG1438 1051072001768 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1051072001769 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1051072001770 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1051072001771 Walker A/P-loop; other site 1051072001772 ATP binding site [chemical binding]; other site 1051072001773 Q-loop/lid; other site 1051072001774 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1051072001775 Q-loop/lid; other site 1051072001776 ABC transporter signature motif; other site 1051072001777 Walker B; other site 1051072001778 D-loop; other site 1051072001779 H-loop/switch region; other site 1051072001780 EDD domain protein, DegV family; Region: DegV; TIGR00762 1051072001781 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1051072001782 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 1051072001783 active site 1051072001784 catalytic triad [active] 1051072001785 oxyanion hole [active] 1051072001786 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 1051072001787 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 1051072001788 IHF dimer interface [polypeptide binding]; other site 1051072001789 IHF - DNA interface [nucleotide binding]; other site 1051072001790 ADP-ribosyltransferase exoenzyme; Region: ADPrib_exo_Tox; pfam03496 1051072001791 active site 1051072001792 conformational flexibility of ligand binding pocket; other site 1051072001793 ADP-ribosylating toxin turn-turn motif; other site 1051072001794 H+ Antiporter protein; Region: 2A0121; TIGR00900 1051072001795 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1051072001796 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 1051072001797 non-specific DNA binding site [nucleotide binding]; other site 1051072001798 salt bridge; other site 1051072001799 sequence-specific DNA binding site [nucleotide binding]; other site 1051072001800 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1051072001801 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1051072001802 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 1051072001803 active site 1051072001804 FMN binding site [chemical binding]; other site 1051072001805 substrate binding site [chemical binding]; other site 1051072001806 catalytic residues [active] 1051072001807 homodimer interface [polypeptide binding]; other site 1051072001808 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 1051072001809 catalytic core [active] 1051072001810 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 1051072001811 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1051072001812 HTH domain; Region: HTH_11; pfam08279 1051072001813 3H domain; Region: 3H; pfam02829 1051072001814 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1051072001815 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1051072001816 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1051072001817 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1051072001818 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1051072001819 recombination protein RecR; Reviewed; Region: recR; PRK00076 1051072001820 RecR protein; Region: RecR; pfam02132 1051072001821 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 1051072001822 putative active site [active] 1051072001823 putative metal-binding site [ion binding]; other site 1051072001824 tetramer interface [polypeptide binding]; other site 1051072001825 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1051072001826 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1051072001827 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1051072001828 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1051072001829 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1051072001830 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1051072001831 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1051072001832 conserved hypothetical integral membrane protein TIGR02206; Region: intg_mem_TP0381 1051072001833 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1051072001834 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1051072001835 G1 box; other site 1051072001836 putative GEF interaction site [polypeptide binding]; other site 1051072001837 GTP/Mg2+ binding site [chemical binding]; other site 1051072001838 Switch I region; other site 1051072001839 G2 box; other site 1051072001840 G3 box; other site 1051072001841 Switch II region; other site 1051072001842 G4 box; other site 1051072001843 G5 box; other site 1051072001844 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 1051072001845 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1051072001846 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 1051072001847 ATP binding site [chemical binding]; other site 1051072001848 Mg++ binding site [ion binding]; other site 1051072001849 motif III; other site 1051072001850 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 1051072001851 nucleotide binding region [chemical binding]; other site 1051072001852 ATP-binding site [chemical binding]; other site 1051072001853 K+ potassium transporter; Region: K_trans; cl15781 1051072001854 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1051072001855 GIY-YIG motif/motif A; other site 1051072001856 putative active site [active] 1051072001857 putative metal binding site [ion binding]; other site 1051072001858 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1051072001859 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 1051072001860 S-adenosylmethionine binding site [chemical binding]; other site 1051072001861 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1051072001862 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1051072001863 putative acyl-acceptor binding pocket; other site 1051072001864 SLBB domain; Region: SLBB; pfam10531 1051072001865 comEA protein; Region: comE; TIGR01259 1051072001866 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1051072001867 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1051072001868 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1051072001869 Competence protein; Region: Competence; pfam03772 1051072001870 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1051072001871 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1051072001872 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1051072001873 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1051072001874 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1051072001875 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1051072001876 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1051072001877 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 1051072001878 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 1051072001879 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1051072001880 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1051072001881 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1051072001882 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 1051072001883 active site 1051072001884 trimer interface [polypeptide binding]; other site 1051072001885 allosteric site; other site 1051072001886 active site lid [active] 1051072001887 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1051072001888 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1051072001889 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 1051072001890 RNA binding surface [nucleotide binding]; other site 1051072001891 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1051072001892 active site 1051072001893 uracil binding [chemical binding]; other site 1051072001894 Competence protein CoiA-like family; Region: CoiA; pfam06054 1051072001895 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1051072001896 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1051072001897 active site 1051072001898 Zn binding site [ion binding]; other site 1051072001899 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1051072001900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1051072001901 Coenzyme A binding pocket [chemical binding]; other site 1051072001902 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1051072001903 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 1051072001904 motif II; other site 1051072001905 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1051072001906 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 1051072001907 motif II; other site 1051072001908 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1051072001909 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 1051072001910 S-adenosylmethionine binding site [chemical binding]; other site 1051072001911 foldase protein PrsA; Reviewed; Region: PRK12450 1051072001912 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1051072001913 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1051072001914 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 1051072001915 motif 1; other site 1051072001916 active site 1051072001917 motif 2; other site 1051072001918 motif 3; other site 1051072001919 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1051072001920 DHHA1 domain; Region: DHHA1; pfam02272 1051072001921 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1051072001922 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1051072001923 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 1051072001924 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 1051072001925 NodB motif; other site 1051072001926 active site 1051072001927 catalytic site [active] 1051072001928 Zn binding site [ion binding]; other site 1051072001929 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1051072001930 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 1051072001931 ATP binding site [chemical binding]; other site 1051072001932 putative Mg++ binding site [ion binding]; other site 1051072001933 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 1051072001934 nucleotide binding region [chemical binding]; other site 1051072001935 ATP-binding site [chemical binding]; other site 1051072001936 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1051072001937 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 1051072001938 Sugar specificity; other site 1051072001939 Pyrimidine base specificity; other site 1051072001940 ATP-binding site [chemical binding]; other site 1051072001941 Predicted membrane protein [Function unknown]; Region: COG3326 1051072001942 Protease prsW family; Region: PrsW-protease; pfam13367 1051072001943 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1051072001944 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1051072001945 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 1051072001946 Walker A motif; other site 1051072001947 ATP binding site [chemical binding]; other site 1051072001948 Walker B motif; other site 1051072001949 arginine finger; other site 1051072001950 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1051072001951 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 1051072001952 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1051072001953 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 1051072001954 dimerization interface [polypeptide binding]; other site 1051072001955 putative DNA binding site [nucleotide binding]; other site 1051072001956 putative Zn2+ binding site [ion binding]; other site 1051072001957 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1051072001958 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1051072001959 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 1051072001960 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1051072001961 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1051072001962 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1051072001963 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1051072001964 Substrate binding site [chemical binding]; other site 1051072001965 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1051072001966 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1051072001967 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1051072001968 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1051072001969 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1051072001970 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1051072001971 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1051072001972 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1051072001973 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1051072001974 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1051072001975 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 1051072001976 hinge; other site 1051072001977 active site 1051072001978 MFS/sugar transport protein; Region: MFS_2; pfam13347 1051072001979 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1051072001980 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1051072001981 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 1051072001982 substrate binding site [chemical binding]; other site 1051072001983 ATP binding site [chemical binding]; other site 1051072001984 beta-D-glucuronidase; Provisional; Region: PRK10150 1051072001985 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1051072001986 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1051072001987 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1051072001988 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1051072001989 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1051072001990 DNA-binding site [nucleotide binding]; DNA binding site 1051072001991 FCD domain; Region: FCD; pfam07729 1051072001992 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1051072001993 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1051072001994 active site 1051072001995 intersubunit interface [polypeptide binding]; other site 1051072001996 catalytic residue [active] 1051072001997 Glucuronate isomerase; Region: UxaC; pfam02614 1051072001998 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1051072001999 mannonate dehydratase; Provisional; Region: PRK03906 1051072002000 mannonate dehydratase; Region: uxuA; TIGR00695 1051072002001 D-mannonate oxidoreductase; Provisional; Region: PRK08277 1051072002002 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 1051072002003 putative NAD(P) binding site [chemical binding]; other site 1051072002004 active site 1051072002005 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1051072002006 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 1051072002007 motif II; other site 1051072002008 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1051072002009 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1051072002010 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1051072002011 GA module; Region: GA; pfam01468 1051072002012 B domain; Region: IgG_binding_B; pfam01378 1051072002013 B domain; Region: IgG_binding_B; pfam01378 1051072002014 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1051072002015 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1051072002016 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1051072002017 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1051072002018 DNA-binding site [nucleotide binding]; DNA binding site 1051072002019 DRTGG domain; Region: DRTGG; pfam07085 1051072002020 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 1051072002021 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; cd03440 1051072002022 active site 2 [active] 1051072002023 active site 1 [active] 1051072002024 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 1051072002025 active site 1051072002026 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1051072002027 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1051072002028 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 1051072002029 hinge; other site 1051072002030 active site 1051072002031 shikimate kinase; Reviewed; Region: aroK; PRK00131 1051072002032 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 1051072002033 ADP binding site [chemical binding]; other site 1051072002034 magnesium binding site [ion binding]; other site 1051072002035 putative shikimate binding site; other site 1051072002036 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1051072002037 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1051072002038 TRAM domain; Region: TRAM; pfam01938 1051072002039 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 1051072002040 S-adenosylmethionine binding site [chemical binding]; other site 1051072002041 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 1051072002042 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 1051072002043 putative active site [active] 1051072002044 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1051072002045 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072002046 Walker A/P-loop; other site 1051072002047 ATP binding site [chemical binding]; other site 1051072002048 Q-loop/lid; other site 1051072002049 ABC transporter signature motif; other site 1051072002050 Walker B; other site 1051072002051 D-loop; other site 1051072002052 H-loop/switch region; other site 1051072002053 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 1051072002054 HlyD family secretion protein; Region: HlyD_3; pfam13437 1051072002055 CAAX protease self-immunity; Region: Abi; pfam02517 1051072002056 Domain of unknown function (DUF4135); Region: DUF4135; pfam13575 1051072002057 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 1051072002058 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1051072002059 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1051072002060 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1051072002061 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1051072002062 Toxin ToxN, type III toxin-antitoxin system; Region: ToxN_toxin; pfam13958 1051072002063 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 1051072002064 active site 1051072002065 DNA binding site [nucleotide binding] 1051072002066 catalytic site [active] 1051072002067 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 1051072002068 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 1051072002069 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 1051072002070 D5 N terminal like; Region: D5_N; pfam08706 1051072002071 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1051072002072 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1051072002073 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1051072002074 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 1051072002075 ATP binding site [chemical binding]; other site 1051072002076 putative Mg++ binding site [ion binding]; other site 1051072002077 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; cl17351 1051072002078 nucleotide binding region [chemical binding]; other site 1051072002079 ATP-binding site [chemical binding]; other site 1051072002080 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1051072002081 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1051072002082 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1051072002083 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1051072002084 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1051072002085 ParB-like nuclease domain; Region: ParBc; pfam02195 1051072002086 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1051072002087 DNA methylase; Region: N6_N4_Mtase; pfam01555 1051072002088 Phage terminase, small subunit; Region: Terminase_4; pfam05119 1051072002089 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1051072002090 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1051072002091 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 1051072002092 Phage-related protein [Function unknown]; Region: COG4695 1051072002093 Phage portal protein; Region: Phage_portal; pfam04860 1051072002094 Clp protease; Region: CLP_protease; pfam00574 1051072002095 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1051072002096 oligomer interface [polypeptide binding]; other site 1051072002097 active site residues [active] 1051072002098 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1051072002099 Phage capsid family; Region: Phage_capsid; pfam05065 1051072002100 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1051072002101 oligomerization interface [polypeptide binding]; other site 1051072002102 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1051072002103 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 1051072002104 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1051072002105 Phage-related protein [Function unknown]; Region: COG5412 1051072002106 Foamy virus envelope protein; Region: Foamy_virus_ENV; pfam03408 1051072002107 Phage-related protein [Function unknown]; Region: COG4722 1051072002108 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 1051072002109 Siphovirus protein of unknown function (DUF859); Region: DUF859; pfam05895 1051072002110 Holin family; Region: Phage_holin_4; pfam05105 1051072002111 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1051072002112 active site 1051072002113 metal binding site [ion binding]; metal-binding site 1051072002114 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1051072002115 CHAP domain; Region: CHAP; cl17642 1051072002116 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1051072002117 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; cd00338 1051072002118 catalytic residues [active] 1051072002119 catalytic nucleophile [active] 1051072002120 Recombinase; Region: Recombinase; pfam07508 1051072002121 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1051072002122 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1051072002123 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; cd00338 1051072002124 catalytic residues [active] 1051072002125 catalytic nucleophile [active] 1051072002126 Recombinase; Region: Recombinase; pfam07508 1051072002127 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1051072002128 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1051072002129 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 1051072002130 Walker A motif; other site 1051072002131 ATP binding site [chemical binding]; other site 1051072002132 Walker B motif; other site 1051072002133 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1051072002134 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 1051072002135 Walker A motif; other site 1051072002136 ATP binding site [chemical binding]; other site 1051072002137 Walker B motif; other site 1051072002138 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 1051072002139 MobA/MobL family; Region: MobA_MobL; pfam03389 1051072002140 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 1051072002141 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1051072002142 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 1051072002143 putative catalytic residues [active] 1051072002144 catalytic nucleophile [active] 1051072002145 Recombinase; Region: Recombinase; pfam07508 1051072002146 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1051072002147 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 1051072002148 MobA/MobL family; Region: MobA_MobL; pfam03389 1051072002149 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 1051072002150 non-specific DNA binding site [nucleotide binding]; other site 1051072002151 salt bridge; other site 1051072002152 sequence-specific DNA binding site [nucleotide binding]; other site 1051072002153 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 1051072002154 Walker B motif; other site 1051072002155 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 1051072002156 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1051072002157 putative active site [active] 1051072002158 putative NTP binding site [chemical binding]; other site 1051072002159 putative nucleic acid binding site [nucleotide binding]; other site 1051072002160 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1051072002161 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1051072002162 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1051072002163 AAA domain; Region: AAA_14; pfam13173 1051072002164 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 1051072002165 catalytic core [active] 1051072002166 hypothetical protein; Provisional; Region: PRK11770 1051072002167 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1051072002168 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1051072002169 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 1051072002170 putative deacylase active site [active] 1051072002171 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; cl17491 1051072002172 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1051072002173 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 1051072002174 active site 1051072002175 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 1051072002176 catalytic residues [active] 1051072002177 dimer interface [polypeptide binding]; other site 1051072002178 oligoendopeptidase F; Region: pepF; TIGR00181 1051072002179 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1051072002180 Zn binding site [ion binding]; other site 1051072002181 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1051072002182 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1051072002183 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1051072002184 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 1051072002185 sequence-specific DNA binding site [nucleotide binding]; other site 1051072002186 salt bridge; other site 1051072002187 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1051072002188 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1051072002189 Walker A/P-loop; other site 1051072002190 ATP binding site [chemical binding]; other site 1051072002191 Q-loop/lid; other site 1051072002192 ABC transporter signature motif; other site 1051072002193 Walker B; other site 1051072002194 D-loop; other site 1051072002195 H-loop/switch region; other site 1051072002196 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1051072002197 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1051072002198 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1051072002199 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1051072002200 Walker A/P-loop; other site 1051072002201 ATP binding site [chemical binding]; other site 1051072002202 Q-loop/lid; other site 1051072002203 ABC transporter signature motif; other site 1051072002204 Walker B; other site 1051072002205 D-loop; other site 1051072002206 H-loop/switch region; other site 1051072002207 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1051072002208 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1051072002209 Walker A/P-loop; other site 1051072002210 ATP binding site [chemical binding]; other site 1051072002211 Q-loop/lid; other site 1051072002212 ABC transporter signature motif; other site 1051072002213 Walker B; other site 1051072002214 D-loop; other site 1051072002215 H-loop/switch region; other site 1051072002216 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1051072002217 PCRF domain; Region: PCRF; pfam03462 1051072002218 RF-1 domain; Region: RF-1; pfam00472 1051072002219 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1051072002220 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072002221 Walker A/P-loop; other site 1051072002222 ATP binding site [chemical binding]; other site 1051072002223 Q-loop/lid; other site 1051072002224 ABC transporter signature motif; other site 1051072002225 Walker B; other site 1051072002226 D-loop; other site 1051072002227 H-loop/switch region; other site 1051072002228 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1051072002229 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1051072002230 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1051072002231 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 1051072002232 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1051072002233 active site 1051072002234 catalytic site [active] 1051072002235 substrate binding site [chemical binding]; other site 1051072002236 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 1051072002237 ATP binding site [chemical binding]; other site 1051072002238 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1051072002239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1051072002240 aspartate aminotransferase; Provisional; Region: PRK05764 1051072002241 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 1051072002242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1051072002243 homodimer interface [polypeptide binding]; other site 1051072002244 catalytic residue [active] 1051072002245 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1051072002246 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 1051072002247 putative dimer interface [polypeptide binding]; other site 1051072002248 putative anticodon binding site; other site 1051072002249 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 1051072002250 homodimer interface [polypeptide binding]; other site 1051072002251 motif 1; other site 1051072002252 motif 2; other site 1051072002253 active site 1051072002254 motif 3; other site 1051072002255 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072002256 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072002257 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1051072002258 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1051072002259 AAA domain; Region: AAA_33; pfam13671 1051072002260 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1051072002261 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 1051072002262 dimer interface [polypeptide binding]; other site 1051072002263 phosphate binding site [ion binding]; other site 1051072002264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1051072002265 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1051072002266 Peptidase family C69; Region: Peptidase_C69; pfam03577 1051072002267 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1051072002268 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 1051072002269 metal binding site [ion binding]; metal-binding site 1051072002270 YodA lipocalin-like domain; Region: YodA; pfam09223 1051072002271 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1051072002272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1051072002273 DNA-binding site [nucleotide binding]; DNA binding site 1051072002274 UTRA domain; Region: UTRA; pfam07702 1051072002275 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 1051072002276 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 1051072002277 dimer interface [polypeptide binding]; other site 1051072002278 active site 1051072002279 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 1051072002280 putative active site [active] 1051072002281 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK04161 1051072002282 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1051072002283 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1051072002284 DNA-binding site [nucleotide binding]; DNA binding site 1051072002285 UTRA domain; Region: UTRA; cl17743 1051072002286 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1051072002287 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 1051072002288 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 1051072002289 active site 1051072002290 phosphorylation site [posttranslational modification] 1051072002291 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1051072002292 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1051072002293 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 1051072002294 active pocket/dimerization site; other site 1051072002295 active site 1051072002296 phosphorylation site [posttranslational modification] 1051072002297 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1051072002298 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1051072002299 DHH family; Region: DHH; pfam01368 1051072002300 DHHA1 domain; Region: DHHA1; pfam02272 1051072002301 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1051072002302 Coenzyme A binding pocket [chemical binding]; other site 1051072002303 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1051072002304 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 1051072002305 active site 1051072002306 flavodoxin; Validated; Region: PRK07308 1051072002307 hypothetical protein; Provisional; Region: PRK07248 1051072002308 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 1051072002309 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1051072002310 Cl- selectivity filter; other site 1051072002311 Cl- binding residues [ion binding]; other site 1051072002312 pore gating glutamate residue; other site 1051072002313 dimer interface [polypeptide binding]; other site 1051072002314 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1051072002315 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1051072002316 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1051072002317 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 1051072002318 non-specific DNA binding site [nucleotide binding]; other site 1051072002319 salt bridge; other site 1051072002320 sequence-specific DNA binding site [nucleotide binding]; other site 1051072002321 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 1051072002322 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 1051072002323 putative ion selectivity filter; other site 1051072002324 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1051072002325 putative pore gating glutamate residue; other site 1051072002326 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1051072002327 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1051072002328 dimer interface [polypeptide binding]; other site 1051072002329 putative radical transfer pathway; other site 1051072002330 diiron center [ion binding]; other site 1051072002331 tyrosyl radical; other site 1051072002332 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1051072002333 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1051072002334 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1051072002335 active site 1051072002336 dimer interface [polypeptide binding]; other site 1051072002337 catalytic residues [active] 1051072002338 effector binding site; other site 1051072002339 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1051072002340 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 1051072002341 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 1051072002342 dimerization domain swap beta strand [polypeptide binding]; other site 1051072002343 regulatory protein interface [polypeptide binding]; other site 1051072002344 active site 1051072002345 regulatory phosphorylation site [posttranslational modification]; other site 1051072002346 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1051072002347 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1051072002348 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1051072002349 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1051072002350 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1051072002351 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 1051072002352 tetrameric interface [polypeptide binding]; other site 1051072002353 activator binding site; other site 1051072002354 NADP binding site [chemical binding]; other site 1051072002355 substrate binding site [chemical binding]; other site 1051072002356 catalytic residues [active] 1051072002357 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1051072002358 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1051072002359 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 1051072002360 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 1051072002361 motif II; other site 1051072002362 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1051072002363 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 1051072002364 Mg2+ binding site [ion binding]; other site 1051072002365 G-X-G motif; other site 1051072002366 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 1051072002367 anchoring element; other site 1051072002368 dimer interface [polypeptide binding]; other site 1051072002369 ATP binding site [chemical binding]; other site 1051072002370 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 1051072002371 active site 1051072002372 putative metal-binding site [ion binding]; other site 1051072002373 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1051072002374 septation ring formation regulator EzrA; Provisional; Region: PRK04778 1051072002375 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 1051072002376 enolase; Provisional; Region: eno; PRK00077 1051072002377 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 1051072002378 dimer interface [polypeptide binding]; other site 1051072002379 metal binding site [ion binding]; metal-binding site 1051072002380 substrate binding pocket [chemical binding]; other site 1051072002381 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 1051072002382 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 1051072002383 motif II; other site 1051072002384 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 1051072002385 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 1051072002386 generic binding surface II; other site 1051072002387 generic binding surface I; other site 1051072002388 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 1051072002389 generic binding surface I; other site 1051072002390 generic binding surface II; other site 1051072002391 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1051072002392 putative catalytic site [active] 1051072002393 putative metal binding site [ion binding]; other site 1051072002394 putative phosphate binding site [ion binding]; other site 1051072002395 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1051072002396 Predicted membrane protein [Function unknown]; Region: COG4708 1051072002397 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1051072002398 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 1051072002399 nucleotide binding pocket [chemical binding]; other site 1051072002400 K-X-D-G motif; other site 1051072002401 catalytic site [active] 1051072002402 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1051072002403 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1051072002404 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 1051072002405 Dimer interface [polypeptide binding]; other site 1051072002406 BRCT sequence motif; other site 1051072002407 putative lipid kinase; Reviewed; Region: PRK13055 1051072002408 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1051072002409 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl17465 1051072002410 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1051072002411 carbohydrate binding site [chemical binding]; other site 1051072002412 pullulanase, type I; Region: pulA_typeI; TIGR02104 1051072002413 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 1051072002414 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 1051072002415 Ca binding site [ion binding]; other site 1051072002416 active site 1051072002417 catalytic site [active] 1051072002418 glycogen branching enzyme; Provisional; Region: PRK12313 1051072002419 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1051072002420 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1051072002421 active site 1051072002422 catalytic site [active] 1051072002423 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1051072002424 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1051072002425 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1051072002426 ligand binding site; other site 1051072002427 oligomer interface; other site 1051072002428 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 1051072002429 dimer interface [polypeptide binding]; other site 1051072002430 N-terminal domain interface [polypeptide binding]; other site 1051072002431 sulfate 1 binding site; other site 1051072002432 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 1051072002433 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 1051072002434 active site 1051072002435 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 1051072002436 dimer interface [polypeptide binding]; other site 1051072002437 N-terminal domain interface [polypeptide binding]; other site 1051072002438 sulfate 1 binding site; other site 1051072002439 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 1051072002440 glycogen synthase; Provisional; Region: glgA; PRK00654 1051072002441 ADP-binding pocket [chemical binding]; other site 1051072002442 homodimer interface [polypeptide binding]; other site 1051072002443 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 1051072002444 homodimer interface [polypeptide binding]; other site 1051072002445 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1051072002446 active site pocket [active] 1051072002447 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 1051072002448 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1051072002449 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1051072002450 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1051072002451 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1051072002452 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1051072002453 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1051072002454 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1051072002455 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1051072002456 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 1051072002457 beta subunit interaction interface [polypeptide binding]; other site 1051072002458 Walker A motif; other site 1051072002459 ATP binding site [chemical binding]; other site 1051072002460 Walker B motif; other site 1051072002461 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1051072002462 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1051072002463 core domain interface [polypeptide binding]; other site 1051072002464 delta subunit interface [polypeptide binding]; other site 1051072002465 epsilon subunit interface [polypeptide binding]; other site 1051072002466 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1051072002467 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1051072002468 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 1051072002469 alpha subunit interaction interface [polypeptide binding]; other site 1051072002470 Walker A motif; other site 1051072002471 ATP binding site [chemical binding]; other site 1051072002472 Walker B motif; other site 1051072002473 inhibitor binding site; inhibition site 1051072002474 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1051072002475 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1051072002476 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1051072002477 gamma subunit interface [polypeptide binding]; other site 1051072002478 epsilon subunit interface [polypeptide binding]; other site 1051072002479 LBP interface [polypeptide binding]; other site 1051072002480 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 1051072002481 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1051072002482 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 1051072002483 hinge; other site 1051072002484 active site 1051072002485 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 1051072002486 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1051072002487 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1051072002488 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1051072002489 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1051072002490 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 1051072002491 dimer interface [polypeptide binding]; other site 1051072002492 motif 1; other site 1051072002493 active site 1051072002494 motif 2; other site 1051072002495 motif 3; other site 1051072002496 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1051072002497 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 1051072002498 putative tRNA-binding site [nucleotide binding]; other site 1051072002499 B3/4 domain; Region: B3_4; pfam03483 1051072002500 tRNA synthetase B5 domain; Region: B5; smart00874 1051072002501 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 1051072002502 dimer interface [polypeptide binding]; other site 1051072002503 motif 1; other site 1051072002504 motif 3; other site 1051072002505 motif 2; other site 1051072002506 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1051072002507 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1051072002508 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1051072002509 FtsX-like permease family; Region: FtsX; pfam02687 1051072002510 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1051072002511 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1051072002512 Walker A/P-loop; other site 1051072002513 ATP binding site [chemical binding]; other site 1051072002514 Q-loop/lid; other site 1051072002515 ABC transporter signature motif; other site 1051072002516 Walker B; other site 1051072002517 D-loop; other site 1051072002518 H-loop/switch region; other site 1051072002519 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1051072002520 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1051072002521 Collagen binding domain; Region: Collagen_bind; pfam05737 1051072002522 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1051072002523 domain interaction interfaces [polypeptide binding]; other site 1051072002524 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1051072002525 domain interaction interfaces [polypeptide binding]; other site 1051072002526 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1051072002527 domain interaction interfaces [polypeptide binding]; other site 1051072002528 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1051072002529 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1051072002530 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 1051072002531 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 1051072002532 active site 1051072002533 catalytic site [active] 1051072002534 Mac 1; Region: Mac-1; pfam09028 1051072002535 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1051072002536 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 1051072002537 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1051072002538 carbohydrate binding site [chemical binding]; other site 1051072002539 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1051072002540 carbohydrate binding site [chemical binding]; other site 1051072002541 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 1051072002542 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 1051072002543 Ca binding site [ion binding]; other site 1051072002544 active site 1051072002545 catalytic site [active] 1051072002546 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1051072002547 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1051072002548 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 1051072002549 DNA binding residues [nucleotide binding] 1051072002550 Putative zinc-finger; Region: zf-HC2; pfam13490 1051072002551 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 1051072002552 putative metal binding residues [ion binding]; other site 1051072002553 signature motif; other site 1051072002554 dimer interface [polypeptide binding]; other site 1051072002555 active site 1051072002556 polyP binding site; other site 1051072002557 substrate binding site [chemical binding]; other site 1051072002558 acceptor-phosphate pocket; other site 1051072002559 CotH protein; Region: CotH; pfam08757 1051072002560 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 1051072002561 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1051072002562 DXD motif; other site 1051072002563 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 1051072002564 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1051072002565 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1051072002566 Part of AAA domain; Region: AAA_19; pfam13245 1051072002567 Family description; Region: UvrD_C_2; pfam13538 1051072002568 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1051072002569 transaminase; Validated; Region: PRK07324 1051072002570 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 1051072002571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1051072002572 homodimer interface [polypeptide binding]; other site 1051072002573 catalytic residue [active] 1051072002574 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 1051072002575 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1051072002576 substrate binding pocket [chemical binding]; other site 1051072002577 membrane-bound complex binding site; other site 1051072002578 hinge residues; other site 1051072002579 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1051072002580 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1051072002581 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1051072002582 DNA primase; Validated; Region: dnaG; PRK05667 1051072002583 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1051072002584 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1051072002585 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 1051072002586 active site 1051072002587 metal binding site [ion binding]; metal-binding site 1051072002588 interdomain interaction site; other site 1051072002589 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1051072002590 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1051072002591 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1051072002592 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1051072002593 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1051072002594 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1051072002595 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 1051072002596 DNA binding residues [nucleotide binding] 1051072002597 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1051072002598 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1051072002599 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1051072002600 NADP binding site [chemical binding]; other site 1051072002601 active site 1051072002602 putative substrate binding site [chemical binding]; other site 1051072002603 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 1051072002604 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1051072002605 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1051072002606 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1051072002607 Probable Catalytic site; other site 1051072002608 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1051072002609 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1051072002610 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1051072002611 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1051072002612 active site 1051072002613 Rhamnan synthesis protein F; Region: RgpF; pfam05045 1051072002614 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1051072002615 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1051072002616 Ligand binding site; other site 1051072002617 Putative Catalytic site; other site 1051072002618 DXD motif; other site 1051072002619 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1051072002620 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 1051072002621 Predicted membrane protein [Function unknown]; Region: COG4713 1051072002622 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1051072002623 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 1051072002624 Sulfatase; Region: Sulfatase; pfam00884 1051072002625 UDP-glucose 4-epimerase; Region: PLN02240 1051072002626 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1051072002627 NAD binding site [chemical binding]; other site 1051072002628 homodimer interface [polypeptide binding]; other site 1051072002629 active site 1051072002630 substrate binding site [chemical binding]; other site 1051072002631 peptidase T; Region: peptidase-T; TIGR01882 1051072002632 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1051072002633 metal binding site [ion binding]; metal-binding site 1051072002634 dimer interface [polypeptide binding]; other site 1051072002635 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1051072002636 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1051072002637 cytidylate kinase; Provisional; Region: cmk; PRK00023 1051072002638 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 1051072002639 CMP-binding site; other site 1051072002640 The sites determining sugar specificity; other site 1051072002641 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1051072002642 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1051072002643 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1051072002644 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1051072002645 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1051072002646 23S rRNA binding site [nucleotide binding]; other site 1051072002647 L21 binding site [polypeptide binding]; other site 1051072002648 L13 binding site [polypeptide binding]; other site 1051072002649 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1051072002650 Sulfatase; Region: Sulfatase; pfam00884 1051072002651 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1051072002652 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1051072002653 putative RNA binding site [nucleotide binding]; other site 1051072002654 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1051072002655 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1051072002656 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1051072002657 active site 1051072002658 catalytic residue [active] 1051072002659 dimer interface [polypeptide binding]; other site 1051072002660 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1051072002661 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1051072002662 Tetramer interface [polypeptide binding]; other site 1051072002663 active site 1051072002664 FMN-binding site [chemical binding]; other site 1051072002665 hypothetical protein; Provisional; Region: PRK13676 1051072002666 glutathione reductase; Validated; Region: PRK06116 1051072002667 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1051072002668 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1051072002669 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1051072002670 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1051072002671 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1051072002672 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1051072002673 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1051072002674 catalytic residue [active] 1051072002675 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1051072002676 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1051072002677 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 1051072002678 Ligand Binding Site [chemical binding]; other site 1051072002679 Mac 1; Region: Mac-1; pfam09028 1051072002680 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1051072002681 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1051072002682 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1051072002683 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1051072002684 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1051072002685 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1051072002686 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1051072002687 Walker A/P-loop; other site 1051072002688 ATP binding site [chemical binding]; other site 1051072002689 Q-loop/lid; other site 1051072002690 ABC transporter signature motif; other site 1051072002691 Walker B; other site 1051072002692 D-loop; other site 1051072002693 H-loop/switch region; other site 1051072002694 Predicted transcriptional regulators [Transcription]; Region: COG1725 1051072002695 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1051072002696 DNA-binding site [nucleotide binding]; DNA binding site 1051072002697 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 1051072002698 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1051072002699 active site 1051072002700 PHP Thumb interface [polypeptide binding]; other site 1051072002701 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 1051072002702 generic binding surface II; other site 1051072002703 generic binding surface I; other site 1051072002704 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 1051072002705 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1051072002706 active site 1051072002707 ADP/pyrophosphate binding site [chemical binding]; other site 1051072002708 dimerization interface [polypeptide binding]; other site 1051072002709 allosteric effector site; other site 1051072002710 fructose-1,6-bisphosphate binding site; other site 1051072002711 pyruvate kinase; Provisional; Region: PRK05826 1051072002712 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; cl17342 1051072002713 domain interfaces; other site 1051072002714 active site 1051072002715 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1051072002716 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; cl10465 1051072002717 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; cl10465 1051072002718 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1051072002719 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 1051072002720 glutaminase active site [active] 1051072002721 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 1051072002722 dimer interface [polypeptide binding]; other site 1051072002723 active site 1051072002724 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 1051072002725 dimer interface [polypeptide binding]; other site 1051072002726 active site 1051072002727 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1051072002728 PhnA protein; Region: PhnA; pfam03831 1051072002729 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 1051072002730 dimer interface [polypeptide binding]; other site 1051072002731 conserved gate region; other site 1051072002732 ABC-ATPase subunit interface; other site 1051072002733 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1051072002734 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072002735 Walker A/P-loop; other site 1051072002736 ATP binding site [chemical binding]; other site 1051072002737 Q-loop/lid; other site 1051072002738 ABC transporter signature motif; other site 1051072002739 Walker B; other site 1051072002740 D-loop; other site 1051072002741 H-loop/switch region; other site 1051072002742 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1051072002743 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 1051072002744 substrate binding pocket [chemical binding]; other site 1051072002745 membrane-bound complex binding site; other site 1051072002746 hinge residues; other site 1051072002747 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1051072002748 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1051072002749 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1051072002750 amino acid carrier protein; Region: agcS; TIGR00835 1051072002751 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1051072002752 Part of AAA domain; Region: AAA_19; pfam13245 1051072002753 Family description; Region: UvrD_C_2; pfam13538 1051072002754 Predicted membrane protein [Function unknown]; Region: COG2261 1051072002755 Small integral membrane protein [Function unknown]; Region: COG5547 1051072002756 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1051072002757 CsbD-like; Region: CsbD; pfam05532 1051072002758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1051072002759 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1051072002760 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1051072002761 DNA-binding site [nucleotide binding]; DNA binding site 1051072002762 TrkA-C domain; Region: TrkA_C; pfam02080 1051072002763 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1051072002764 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1051072002765 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1051072002766 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1051072002767 Walker A/P-loop; other site 1051072002768 ATP binding site [chemical binding]; other site 1051072002769 Q-loop/lid; other site 1051072002770 ABC transporter signature motif; other site 1051072002771 Walker B; other site 1051072002772 D-loop; other site 1051072002773 H-loop/switch region; other site 1051072002774 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1051072002775 FtsX-like permease family; Region: FtsX; pfam02687 1051072002776 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1051072002777 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1051072002778 FtsX-like permease family; Region: FtsX; pfam02687 1051072002779 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 1051072002780 Predicted membrane protein [Function unknown]; Region: COG4129 1051072002781 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1051072002782 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 1051072002783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 1051072002784 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 1051072002785 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 1051072002786 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1051072002787 RNA binding site [nucleotide binding]; other site 1051072002788 active site 1051072002789 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1051072002790 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1051072002791 active site 1051072002792 Riboflavin kinase; Region: Flavokinase; pfam01687 1051072002793 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 1051072002794 ArsC family; Region: ArsC; pfam03960 1051072002795 putative catalytic residues [active] 1051072002796 thiol/disulfide switch; other site 1051072002797 hypothetical protein; Provisional; Region: PRK04387 1051072002798 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1051072002799 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 1051072002800 active site 1051072002801 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1051072002802 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 1051072002803 S-adenosylmethionine binding site [chemical binding]; other site 1051072002804 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1051072002805 PBP superfamily domain; Region: PBP_like_2; cl17296 1051072002806 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1051072002807 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 1051072002808 dimer interface [polypeptide binding]; other site 1051072002809 conserved gate region; other site 1051072002810 putative PBP binding loops; other site 1051072002811 ABC-ATPase subunit interface; other site 1051072002812 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1051072002813 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 1051072002814 dimer interface [polypeptide binding]; other site 1051072002815 conserved gate region; other site 1051072002816 putative PBP binding loops; other site 1051072002817 ABC-ATPase subunit interface; other site 1051072002818 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 1051072002819 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1051072002820 Walker A/P-loop; other site 1051072002821 ATP binding site [chemical binding]; other site 1051072002822 Q-loop/lid; other site 1051072002823 ABC transporter signature motif; other site 1051072002824 Walker B; other site 1051072002825 D-loop; other site 1051072002826 H-loop/switch region; other site 1051072002827 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 1051072002828 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1051072002829 Walker A/P-loop; other site 1051072002830 ATP binding site [chemical binding]; other site 1051072002831 Q-loop/lid; other site 1051072002832 ABC transporter signature motif; other site 1051072002833 Walker B; other site 1051072002834 D-loop; other site 1051072002835 H-loop/switch region; other site 1051072002836 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1051072002837 PhoU domain; Region: PhoU; pfam01895 1051072002838 PhoU domain; Region: PhoU; pfam01895 1051072002839 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1051072002840 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1051072002841 Zn binding site [ion binding]; other site 1051072002842 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1051072002843 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 1051072002844 active site 1051072002845 phosphorylation site [posttranslational modification] 1051072002846 intermolecular recognition site; other site 1051072002847 dimerization interface [polypeptide binding]; other site 1051072002848 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 1051072002849 DNA binding site [nucleotide binding] 1051072002850 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 1051072002851 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1051072002852 dimer interface [polypeptide binding]; other site 1051072002853 phosphorylation site [posttranslational modification] 1051072002854 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 1051072002855 ATP binding site [chemical binding]; other site 1051072002856 Mg2+ binding site [ion binding]; other site 1051072002857 G-X-G motif; other site 1051072002858 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 1051072002859 nucleophilic elbow; other site 1051072002860 catalytic triad; other site 1051072002861 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1051072002862 pantothenate kinase; Provisional; Region: PRK05439 1051072002863 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 1051072002864 ATP-binding site [chemical binding]; other site 1051072002865 CoA-binding site [chemical binding]; other site 1051072002866 Mg2+-binding site [ion binding]; other site 1051072002867 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1051072002868 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 1051072002869 S-adenosylmethionine binding site [chemical binding]; other site 1051072002870 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1051072002871 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1051072002872 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1051072002873 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1051072002874 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1051072002875 intersubunit interface [polypeptide binding]; other site 1051072002876 active site 1051072002877 catalytic residue [active] 1051072002878 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 1051072002879 active site 1051072002880 catalytic motif [active] 1051072002881 Zn binding site [ion binding]; other site 1051072002882 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1051072002883 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 1051072002884 ligand binding site [chemical binding]; other site 1051072002885 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1051072002886 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072002887 Walker A/P-loop; other site 1051072002888 ATP binding site [chemical binding]; other site 1051072002889 Q-loop/lid; other site 1051072002890 ABC transporter signature motif; other site 1051072002891 Walker B; other site 1051072002892 D-loop; other site 1051072002893 H-loop/switch region; other site 1051072002894 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1051072002895 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1051072002896 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 1051072002897 TM-ABC transporter signature motif; other site 1051072002898 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1051072002899 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 1051072002900 TM-ABC transporter signature motif; other site 1051072002901 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1051072002902 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1051072002903 active site 1051072002904 substrate binding site [chemical binding]; other site 1051072002905 metal binding site [ion binding]; metal-binding site 1051072002906 Predicted membrane protein [Function unknown]; Region: COG4684 1051072002907 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1051072002908 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 1051072002909 Flavoprotein; Region: Flavoprotein; pfam02441 1051072002910 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 1051072002911 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1051072002912 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 1051072002913 Potassium binding sites [ion binding]; other site 1051072002914 Cesium cation binding sites [ion binding]; other site 1051072002915 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 1051072002916 putative active site [active] 1051072002917 catalytic triad [active] 1051072002918 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 1051072002919 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 1051072002920 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 1051072002921 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1051072002922 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 1051072002923 putative active site [active] 1051072002924 catalytic site [active] 1051072002925 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 1051072002926 putative active site [active] 1051072002927 catalytic site [active] 1051072002928 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1051072002929 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1051072002930 ATP cone domain; Region: ATP-cone; pfam03477 1051072002931 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1051072002932 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1051072002933 DNA-binding site [nucleotide binding]; DNA binding site 1051072002934 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 1051072002935 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1051072002936 homodimer interface [polypeptide binding]; other site 1051072002937 catalytic residue [active] 1051072002938 pyridoxamine kinase; Validated; Region: PRK07105 1051072002939 substrate binding site [chemical binding]; other site 1051072002940 ATP binding site [chemical binding]; other site 1051072002941 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 1051072002942 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1051072002943 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072002944 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072002945 ABC transporter; Region: ABC_tran_2; pfam12848 1051072002946 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072002947 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1051072002948 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1051072002949 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1051072002950 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1051072002951 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1051072002952 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1051072002953 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 1051072002954 S-adenosylmethionine binding site [chemical binding]; other site 1051072002955 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1051072002956 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1051072002957 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 1051072002958 active site 1051072002959 phosphorylation site [posttranslational modification] 1051072002960 intermolecular recognition site; other site 1051072002961 dimerization interface [polypeptide binding]; other site 1051072002962 LytTr DNA-binding domain; Region: LytTR; pfam04397 1051072002963 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1051072002964 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 1051072002965 Walker A/P-loop; other site 1051072002966 ATP binding site [chemical binding]; other site 1051072002967 Q-loop/lid; other site 1051072002968 ABC transporter signature motif; other site 1051072002969 Walker B; other site 1051072002970 D-loop; other site 1051072002971 H-loop/switch region; other site 1051072002972 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1051072002973 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1051072002974 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1051072002975 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1051072002976 GTP/Mg2+ binding site [chemical binding]; other site 1051072002977 G4 box; other site 1051072002978 G5 box; other site 1051072002979 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1051072002980 G1 box; other site 1051072002981 G1 box; other site 1051072002982 GTP/Mg2+ binding site [chemical binding]; other site 1051072002983 Switch I region; other site 1051072002984 G2 box; other site 1051072002985 G2 box; other site 1051072002986 G3 box; other site 1051072002987 G3 box; other site 1051072002988 Switch II region; other site 1051072002989 Switch II region; other site 1051072002990 G4 box; other site 1051072002991 G5 box; other site 1051072002992 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1051072002993 RNA/DNA hybrid binding site [nucleotide binding]; other site 1051072002994 active site 1051072002995 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1051072002996 DNA protecting protein DprA; Region: dprA; TIGR00732 1051072002997 DNA topoisomerase I; Validated; Region: PRK05582 1051072002998 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 1051072002999 active site 1051072003000 interdomain interaction site; other site 1051072003001 putative metal-binding site [ion binding]; other site 1051072003002 nucleotide binding site [chemical binding]; other site 1051072003003 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 1051072003004 domain I; other site 1051072003005 DNA binding groove [nucleotide binding] 1051072003006 phosphate binding site [ion binding]; other site 1051072003007 domain II; other site 1051072003008 domain III; other site 1051072003009 nucleotide binding site [chemical binding]; other site 1051072003010 catalytic site [active] 1051072003011 domain IV; other site 1051072003012 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1051072003013 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1051072003014 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1051072003015 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1051072003016 Glucose inhibited division protein A; Region: GIDA; pfam01134 1051072003017 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 1051072003018 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1051072003019 active site 1051072003020 nucleotide binding site [chemical binding]; other site 1051072003021 HIGH motif; other site 1051072003022 KMSKS motif; other site 1051072003023 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1051072003024 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 1051072003025 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1051072003026 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 1051072003027 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1051072003028 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1051072003029 DNA-binding site [nucleotide binding]; DNA binding site 1051072003030 FCD domain; Region: FCD; pfam07729 1051072003031 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1051072003032 Citrate transporter; Region: CitMHS; pfam03600 1051072003033 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 1051072003034 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 1051072003035 carboxyltransferase (CT) interaction site; other site 1051072003036 biotinylation site [posttranslational modification]; other site 1051072003037 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; pfam03977 1051072003038 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 1051072003039 citrate lyase subunit gamma; Provisional; Region: PRK13253 1051072003040 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1051072003041 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1051072003042 Coenzyme A transferase; Region: CoA_trans; cl17247 1051072003043 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1051072003044 2'-(5''-triphosphoribosyl)-3'- dephospho-CoA:apo-citrate lyase; Reviewed; Region: citX; PRK01392 1051072003045 oxaloacetate decarboxylase; Provisional; Region: PRK12331 1051072003046 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1051072003047 active site 1051072003048 catalytic residues [active] 1051072003049 metal binding site [ion binding]; metal-binding site 1051072003050 homodimer binding site [polypeptide binding]; other site 1051072003051 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 1051072003052 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1051072003053 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1051072003054 Walker A/P-loop; other site 1051072003055 ATP binding site [chemical binding]; other site 1051072003056 Q-loop/lid; other site 1051072003057 ABC transporter signature motif; other site 1051072003058 Walker B; other site 1051072003059 D-loop; other site 1051072003060 H-loop/switch region; other site 1051072003061 FtsX-like permease family; Region: FtsX; pfam02687 1051072003062 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1051072003063 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 1051072003064 active site 1051072003065 phosphorylation site [posttranslational modification] 1051072003066 intermolecular recognition site; other site 1051072003067 dimerization interface [polypeptide binding]; other site 1051072003068 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 1051072003069 DNA binding site [nucleotide binding] 1051072003070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1051072003071 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 1051072003072 ATP binding site [chemical binding]; other site 1051072003073 Mg2+ binding site [ion binding]; other site 1051072003074 G-X-G motif; other site 1051072003075 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1051072003076 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 1051072003077 active site 1051072003078 DNA binding site [nucleotide binding] 1051072003079 Int/Topo IB signature motif; other site 1051072003080 GtrA-like protein; Region: GtrA; pfam04138 1051072003081 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1051072003082 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 1051072003083 non-specific DNA binding site [nucleotide binding]; other site 1051072003084 salt bridge; other site 1051072003085 sequence-specific DNA binding site [nucleotide binding]; other site 1051072003086 Predicted transcriptional regulator [Transcription]; Region: COG2932 1051072003087 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 1051072003088 Catalytic site [active] 1051072003089 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1051072003090 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1051072003091 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 1051072003092 ATP binding site [chemical binding]; other site 1051072003093 putative Mg++ binding site [ion binding]; other site 1051072003094 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1051072003095 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1051072003096 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1051072003097 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 1051072003098 sequence-specific DNA binding site [nucleotide binding]; other site 1051072003099 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1051072003100 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 1051072003101 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1051072003102 putative active site [active] 1051072003103 putative NTP binding site [chemical binding]; other site 1051072003104 putative nucleic acid binding site [nucleotide binding]; other site 1051072003105 Type II intron maturase; Region: Intron_maturas2; pfam01348 1051072003106 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1051072003107 Virulence-associated protein E; Region: VirE; pfam05272 1051072003108 Uncharacterized conserved protein [Function unknown]; Region: COG4983 1051072003109 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1051072003110 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 1051072003111 active site 1051072003112 DNA binding site [nucleotide binding] 1051072003113 Int/Topo IB signature motif; other site 1051072003114 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072003115 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072003116 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1051072003117 Fic/DOC family; Region: Fic; cl00960 1051072003118 GMP synthase; Reviewed; Region: guaA; PRK00074 1051072003119 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1051072003120 AMP/PPi binding site [chemical binding]; other site 1051072003121 candidate oxyanion hole; other site 1051072003122 catalytic triad [active] 1051072003123 potential glutamine specificity residues [chemical binding]; other site 1051072003124 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 1051072003125 ATP Binding subdomain [chemical binding]; other site 1051072003126 Dimerization subdomain; other site 1051072003127 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1051072003128 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1051072003129 DNA-binding site [nucleotide binding]; DNA binding site 1051072003130 UTRA domain; Region: UTRA; pfam07702 1051072003131 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1051072003132 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 1051072003133 signal recognition particle protein; Provisional; Region: PRK10867 1051072003134 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1051072003135 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 1051072003136 P loop; other site 1051072003137 GTP binding site [chemical binding]; other site 1051072003138 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1051072003139 FemAB family; Region: FemAB; pfam02388 1051072003140 Predicted secreted protein [Function unknown]; Region: COG4086 1051072003141 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1051072003142 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 1051072003143 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1051072003144 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1051072003145 intersubunit interface [polypeptide binding]; other site 1051072003146 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 1051072003147 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1051072003148 putative metal binding site [ion binding]; other site 1051072003149 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 1051072003150 active site 1051072003151 catalytic site [active] 1051072003152 DNA gyrase subunit A; Validated; Region: PRK05560 1051072003153 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 1051072003154 CAP-like domain; other site 1051072003155 active site 1051072003156 primary dimer interface [polypeptide binding]; other site 1051072003157 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1051072003158 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1051072003159 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1051072003160 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1051072003161 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1051072003162 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1051072003163 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1051072003164 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1051072003165 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1051072003166 NAD binding site [chemical binding]; other site 1051072003167 dimer interface [polypeptide binding]; other site 1051072003168 substrate binding site [chemical binding]; other site 1051072003169 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1051072003170 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1051072003171 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1051072003172 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 1051072003173 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1051072003174 catalytic residue [active] 1051072003175 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 1051072003176 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1051072003177 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 1051072003178 dimer interface [polypeptide binding]; other site 1051072003179 active site 1051072003180 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1051072003181 folate binding site [chemical binding]; other site 1051072003182 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1051072003183 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1051072003184 Coenzyme A binding pocket [chemical binding]; other site 1051072003185 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1051072003186 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1051072003187 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 1051072003188 S-adenosylmethionine binding site [chemical binding]; other site 1051072003189 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1051072003190 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1051072003191 RF-1 domain; Region: RF-1; pfam00472 1051072003192 thymidine kinase; Provisional; Region: PRK04296 1051072003193 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 1051072003194 active site 1 [active] 1051072003195 dimer interface [polypeptide binding]; other site 1051072003196 hexamer interface [polypeptide binding]; other site 1051072003197 active site 2 [active] 1051072003198 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1051072003199 ApbE family; Region: ApbE; pfam02424 1051072003200 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1051072003201 active site 1051072003202 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1051072003203 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 1051072003204 active site 1051072003205 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 1051072003206 dimer interface [polypeptide binding]; other site 1051072003207 conserved gate region; other site 1051072003208 putative PBP binding loops; other site 1051072003209 ABC-ATPase subunit interface; other site 1051072003210 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1051072003211 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1051072003212 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1051072003213 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072003214 Walker A/P-loop; other site 1051072003215 ATP binding site [chemical binding]; other site 1051072003216 Q-loop/lid; other site 1051072003217 ABC transporter signature motif; other site 1051072003218 Walker B; other site 1051072003219 D-loop; other site 1051072003220 H-loop/switch region; other site 1051072003221 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1051072003222 malonic semialdehyde reductase; Provisional; Region: PRK10538 1051072003223 putative NAD(P) binding site [chemical binding]; other site 1051072003224 homotetramer interface [polypeptide binding]; other site 1051072003225 homodimer interface [polypeptide binding]; other site 1051072003226 active site 1051072003227 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1051072003228 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1051072003229 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1051072003230 active site 1051072003231 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1051072003232 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1051072003233 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1051072003234 synthetase active site [active] 1051072003235 NTP binding site [chemical binding]; other site 1051072003236 metal binding site [ion binding]; metal-binding site 1051072003237 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1051072003238 putative active site [active] 1051072003239 putative metal binding residues [ion binding]; other site 1051072003240 signature motif; other site 1051072003241 putative triphosphate binding site [ion binding]; other site 1051072003242 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 1051072003243 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1051072003244 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1051072003245 active site 1051072003246 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1051072003247 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1051072003248 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1051072003249 catalytic residue [active] 1051072003250 Putative amino acid metabolism; Region: DUF1831; pfam08866 1051072003251 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 1051072003252 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1051072003253 CoA binding domain; Region: CoA_binding; pfam02629 1051072003254 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1051072003255 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1051072003256 catalytic triad [active] 1051072003257 hypothetical protein; Reviewed; Region: PRK00024 1051072003258 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1051072003259 MPN+ (JAMM) motif; other site 1051072003260 Zinc-binding site [ion binding]; other site 1051072003261 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1051072003262 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1051072003263 NnaC (CMP-NeuNAc synthetase) _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...; Region: NnaC_like; cd01841 1051072003264 active site 1051072003265 catalytic triad [active] 1051072003266 oxyanion hole [active] 1051072003267 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 1051072003268 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1051072003269 Cl- selectivity filter; other site 1051072003270 Cl- binding residues [ion binding]; other site 1051072003271 pore gating glutamate residue; other site 1051072003272 dimer interface [polypeptide binding]; other site 1051072003273 H+/Cl- coupling transport residue; other site 1051072003274 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1051072003275 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1051072003276 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1051072003277 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 1051072003278 dimer interface [polypeptide binding]; other site 1051072003279 conserved gate region; other site 1051072003280 putative PBP binding loops; other site 1051072003281 ABC-ATPase subunit interface; other site 1051072003282 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 1051072003283 dimer interface [polypeptide binding]; other site 1051072003284 conserved gate region; other site 1051072003285 putative PBP binding loops; other site 1051072003286 ABC-ATPase subunit interface; other site 1051072003287 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1051072003288 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1051072003289 Walker A/P-loop; other site 1051072003290 ATP binding site [chemical binding]; other site 1051072003291 Q-loop/lid; other site 1051072003292 ABC transporter signature motif; other site 1051072003293 Walker B; other site 1051072003294 D-loop; other site 1051072003295 H-loop/switch region; other site 1051072003296 TOBE domain; Region: TOBE_2; pfam08402 1051072003297 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1051072003298 FAD binding domain; Region: FAD_binding_4; pfam01565 1051072003299 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1051072003300 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 1051072003301 catalytic center binding site [active] 1051072003302 ATP binding site [chemical binding]; other site 1051072003303 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1051072003304 homooctamer interface [polypeptide binding]; other site 1051072003305 active site 1051072003306 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1051072003307 dihydropteroate synthase; Region: DHPS; TIGR01496 1051072003308 substrate binding pocket [chemical binding]; other site 1051072003309 dimer interface [polypeptide binding]; other site 1051072003310 inhibitor binding site; inhibition site 1051072003311 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1051072003312 homodecamer interface [polypeptide binding]; other site 1051072003313 GTP cyclohydrolase I; Provisional; Region: PLN03044 1051072003314 active site 1051072003315 putative catalytic site residues [active] 1051072003316 zinc binding site [ion binding]; other site 1051072003317 GTP-CH-I/GFRP interaction surface; other site 1051072003318 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1051072003319 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1051072003320 homoserine kinase; Provisional; Region: PRK01212 1051072003321 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1051072003322 homoserine dehydrogenase; Provisional; Region: PRK06349 1051072003323 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1051072003324 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1051072003325 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1051072003326 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1051072003327 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 1051072003328 putative active site [active] 1051072003329 putative metal binding site [ion binding]; other site 1051072003330 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1051072003331 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1051072003332 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 1051072003333 active site 1051072003334 multimer interface [polypeptide binding]; other site 1051072003335 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 1051072003336 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1051072003337 Walker A motif; other site 1051072003338 ATP binding site [chemical binding]; other site 1051072003339 Walker B motif; other site 1051072003340 arginine finger; other site 1051072003341 UvrB/uvrC motif; Region: UVR; pfam02151 1051072003342 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 1051072003343 Walker A motif; other site 1051072003344 ATP binding site [chemical binding]; other site 1051072003345 Walker B motif; other site 1051072003346 arginine finger; other site 1051072003347 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1051072003348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072003349 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072003350 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1051072003351 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1051072003352 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1051072003353 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1051072003354 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1051072003355 G1 box; other site 1051072003356 GTP/Mg2+ binding site [chemical binding]; other site 1051072003357 Switch I region; other site 1051072003358 G2 box; other site 1051072003359 G3 box; other site 1051072003360 Switch II region; other site 1051072003361 G4 box; other site 1051072003362 G5 box; other site 1051072003363 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1051072003364 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1051072003365 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 1051072003366 Walker A motif; other site 1051072003367 ATP binding site [chemical binding]; other site 1051072003368 Walker B motif; other site 1051072003369 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1051072003370 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1051072003371 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 1051072003372 folate binding site [chemical binding]; other site 1051072003373 NADP+ binding site [chemical binding]; other site 1051072003374 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1051072003375 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 1051072003376 dimerization interface [polypeptide binding]; other site 1051072003377 active site 1051072003378 "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 1051072003379 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1051072003380 dimer interface [polypeptide binding]; other site 1051072003381 active site 1051072003382 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1051072003383 homodimer interface [polypeptide binding]; other site 1051072003384 catalytic residues [active] 1051072003385 NAD binding site [chemical binding]; other site 1051072003386 substrate binding pocket [chemical binding]; other site 1051072003387 flexible flap; other site 1051072003388 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1051072003389 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 1051072003390 homotetramer interface [polypeptide binding]; other site 1051072003391 FMN binding site [chemical binding]; other site 1051072003392 homodimer contacts [polypeptide binding]; other site 1051072003393 putative active site [active] 1051072003394 putative substrate binding site [chemical binding]; other site 1051072003395 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1051072003396 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1051072003397 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1051072003398 diphosphomevalonate decarboxylase; Region: PLN02407 1051072003399 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 1051072003400 mevalonate kinase; Region: mevalon_kin; TIGR00549 1051072003401 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1051072003402 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1051072003403 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1051072003404 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1051072003405 Walker A/P-loop; other site 1051072003406 ATP binding site [chemical binding]; other site 1051072003407 Q-loop/lid; other site 1051072003408 ABC transporter signature motif; other site 1051072003409 Walker B; other site 1051072003410 D-loop; other site 1051072003411 H-loop/switch region; other site 1051072003412 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1051072003413 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1051072003414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072003415 Walker A/P-loop; other site 1051072003416 ATP binding site [chemical binding]; other site 1051072003417 Q-loop/lid; other site 1051072003418 ABC transporter signature motif; other site 1051072003419 Walker B; other site 1051072003420 D-loop; other site 1051072003421 H-loop/switch region; other site 1051072003422 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1051072003423 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 1051072003424 putative active site [active] 1051072003425 putative metal binding site [ion binding]; other site 1051072003426 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1051072003427 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 1051072003428 active site 1051072003429 catalytic residues [active] 1051072003430 metal binding site [ion binding]; metal-binding site 1051072003431 glutamate dehydrogenase; Provisional; Region: PRK09414 1051072003432 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1051072003433 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1051072003434 NAD(P) binding site [chemical binding]; other site 1051072003435 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1051072003436 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1051072003437 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1051072003438 Walker A/P-loop; other site 1051072003439 ATP binding site [chemical binding]; other site 1051072003440 Q-loop/lid; other site 1051072003441 ABC transporter signature motif; other site 1051072003442 Walker B; other site 1051072003443 D-loop; other site 1051072003444 H-loop/switch region; other site 1051072003445 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1051072003446 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1051072003447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072003448 Walker A/P-loop; other site 1051072003449 ATP binding site [chemical binding]; other site 1051072003450 Q-loop/lid; other site 1051072003451 ABC transporter signature motif; other site 1051072003452 Walker B; other site 1051072003453 D-loop; other site 1051072003454 H-loop/switch region; other site 1051072003455 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1051072003456 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072003457 Walker A/P-loop; other site 1051072003458 ATP binding site [chemical binding]; other site 1051072003459 Q-loop/lid; other site 1051072003460 ABC transporter signature motif; other site 1051072003461 Walker B; other site 1051072003462 D-loop; other site 1051072003463 H-loop/switch region; other site 1051072003464 ABC transporter; Region: ABC_tran_2; pfam12848 1051072003465 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072003466 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1051072003467 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1051072003468 active site 1051072003469 NTP binding site [chemical binding]; other site 1051072003470 metal binding triad [ion binding]; metal-binding site 1051072003471 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1051072003472 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1051072003473 EDD domain protein, DegV family; Region: DegV; TIGR00762 1051072003474 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1051072003475 Protein of unknown function (DUF1149); Region: DUF1149; pfam06619 1051072003476 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1051072003477 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072003478 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072003479 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 1051072003480 transmembrane helices; other site 1051072003481 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1051072003482 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 1051072003483 non-specific DNA binding site [nucleotide binding]; other site 1051072003484 salt bridge; other site 1051072003485 sequence-specific DNA binding site [nucleotide binding]; other site 1051072003486 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1051072003487 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 1051072003488 active site 1051072003489 phosphorylation site [posttranslational modification] 1051072003490 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1051072003491 active site 1051072003492 P-loop; other site 1051072003493 phosphorylation site [posttranslational modification] 1051072003494 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1051072003495 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1051072003496 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 1051072003497 putative substrate binding site [chemical binding]; other site 1051072003498 putative ATP binding site [chemical binding]; other site 1051072003499 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1051072003500 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1051072003501 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1051072003502 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1051072003503 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1051072003504 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1051072003505 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 1051072003506 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 1051072003507 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1051072003508 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1051072003509 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1051072003510 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1051072003511 RimM N-terminal domain; Region: RimM; pfam01782 1051072003512 PRC-barrel domain; Region: PRC; pfam05239 1051072003513 putative transposase OrfB; Reviewed; Region: PHA02517 1051072003514 HTH-like domain; Region: HTH_21; pfam13276 1051072003515 Integrase core domain; Region: rve; pfam00665 1051072003516 Integrase core domain; Region: rve_2; pfam13333 1051072003517 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1051072003518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1051072003519 Helix-turn-helix domain; Region: HTH_28; pfam13518 1051072003520 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072003521 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072003522 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1051072003523 KH domain; Region: KH_4; pfam13083 1051072003524 G-X-X-G motif; other site 1051072003525 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1051072003526 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1051072003527 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1051072003528 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1051072003529 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1051072003530 FtsX-like permease family; Region: FtsX; pfam02687 1051072003531 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1051072003532 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1051072003533 Walker A/P-loop; other site 1051072003534 ATP binding site [chemical binding]; other site 1051072003535 Q-loop/lid; other site 1051072003536 ABC transporter signature motif; other site 1051072003537 Walker B; other site 1051072003538 D-loop; other site 1051072003539 H-loop/switch region; other site 1051072003540 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1051072003541 HlyD family secretion protein; Region: HlyD_3; pfam13437 1051072003542 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1051072003543 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1051072003544 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1051072003545 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1051072003546 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1051072003547 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1051072003548 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 1051072003549 IMP binding site; other site 1051072003550 dimer interface [polypeptide binding]; other site 1051072003551 interdomain contacts; other site 1051072003552 partial ornithine binding site; other site 1051072003553 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1051072003554 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1051072003555 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1051072003556 catalytic site [active] 1051072003557 subunit interface [polypeptide binding]; other site 1051072003558 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1051072003559 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1051072003560 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1051072003561 uracil transporter; Provisional; Region: PRK10720 1051072003562 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1051072003563 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1051072003564 active site 1051072003565 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1051072003566 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1051072003567 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1051072003568 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 1051072003569 RNA binding surface [nucleotide binding]; other site 1051072003570 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1051072003571 active site 1051072003572 lipoprotein signal peptidase; Provisional; Region: PRK14797 1051072003573 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1051072003574 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1051072003575 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 1051072003576 dimerization interface [polypeptide binding]; other site 1051072003577 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1051072003578 Protein of unknown function (DUF464); Region: DUF464; pfam04327 1051072003579 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1051072003580 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1051072003581 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1051072003582 putative active site [active] 1051072003583 putative metal binding site [ion binding]; other site 1051072003584 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 1051072003585 H+ Antiporter protein; Region: 2A0121; TIGR00900 1051072003586 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1051072003587 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1051072003588 Transposase; Region: HTH_Tnp_1; cl17663 1051072003589 putative transposase OrfB; Reviewed; Region: PHA02517 1051072003590 HTH-like domain; Region: HTH_21; pfam13276 1051072003591 Integrase core domain; Region: rve; pfam00665 1051072003592 Integrase core domain; Region: rve_2; pfam13333 1051072003593 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1051072003594 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 1051072003595 RNA binding site [nucleotide binding]; other site 1051072003596 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 1051072003597 RNA binding site [nucleotide binding]; other site 1051072003598 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 1051072003599 RNA binding site [nucleotide binding]; other site 1051072003600 S1_RPS1_repeat_hs4: 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_hs4; cd05692 1051072003601 RNA binding site [nucleotide binding]; other site 1051072003602 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1051072003603 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1051072003604 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 1051072003605 homodimer interface [polypeptide binding]; other site 1051072003606 substrate-cofactor binding pocket; other site 1051072003607 catalytic residue [active] 1051072003608 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 1051072003609 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 1051072003610 CAP-like domain; other site 1051072003611 active site 1051072003612 primary dimer interface [polypeptide binding]; other site 1051072003613 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1051072003614 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 1051072003615 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 1051072003616 Mg2+ binding site [ion binding]; other site 1051072003617 G-X-G motif; other site 1051072003618 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 1051072003619 anchoring element; other site 1051072003620 dimer interface [polypeptide binding]; other site 1051072003621 ATP binding site [chemical binding]; other site 1051072003622 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 1051072003623 active site 1051072003624 putative metal-binding site [ion binding]; other site 1051072003625 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1051072003626 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1051072003627 dihydroorotase; Validated; Region: pyrC; PRK09357 1051072003628 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 1051072003629 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 1051072003630 active site 1051072003631 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1051072003632 ligand binding site [chemical binding]; other site 1051072003633 active site 1051072003634 UGI interface [polypeptide binding]; other site 1051072003635 catalytic site [active] 1051072003636 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1051072003637 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1051072003638 Coenzyme A binding pocket [chemical binding]; other site 1051072003639 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 1051072003640 dimer interface [polypeptide binding]; other site 1051072003641 conserved gate region; other site 1051072003642 putative PBP binding loops; other site 1051072003643 ABC-ATPase subunit interface; other site 1051072003644 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 1051072003645 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1051072003646 substrate binding pocket [chemical binding]; other site 1051072003647 membrane-bound complex binding site; other site 1051072003648 hinge residues; other site 1051072003649 amidase; Provisional; Region: PRK06529 1051072003650 Amidase; Region: Amidase; cl11426 1051072003651 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1051072003652 Coenzyme A binding pocket [chemical binding]; other site 1051072003653 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1051072003654 active site 1051072003655 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 1051072003656 active site 1051072003657 dimer interface [polypeptide binding]; other site 1051072003658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1051072003659 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1051072003660 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 1051072003661 dimerization interface [polypeptide binding]; other site 1051072003662 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl09873 1051072003663 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1051072003664 phosphopentomutase; Provisional; Region: PRK05362 1051072003665 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1051072003666 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 1051072003667 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1051072003668 active site 1051072003669 dimer interface [polypeptide binding]; other site 1051072003670 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 1051072003671 type VII secretion effector, SACOL2603 family; Region: T7SS_SACOL2603; TIGR04197 1051072003672 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 1051072003673 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1051072003674 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1051072003675 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1051072003676 G1 box; other site 1051072003677 GTP/Mg2+ binding site [chemical binding]; other site 1051072003678 Switch I region; other site 1051072003679 G2 box; other site 1051072003680 Switch II region; other site 1051072003681 G3 box; other site 1051072003682 G4 box; other site 1051072003683 G5 box; other site 1051072003684 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1051072003685 dipeptidase PepV; Reviewed; Region: PRK07318 1051072003686 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1051072003687 active site 1051072003688 metal binding site [ion binding]; metal-binding site 1051072003689 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 1051072003690 dimer interface [polypeptide binding]; other site 1051072003691 FMN binding site [chemical binding]; other site 1051072003692 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1051072003693 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1051072003694 GIY-YIG motif/motif A; other site 1051072003695 active site 1051072003696 catalytic site [active] 1051072003697 putative DNA binding site [nucleotide binding]; other site 1051072003698 metal binding site [ion binding]; metal-binding site 1051072003699 UvrB/uvrC motif; Region: UVR; pfam02151 1051072003700 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1051072003701 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1051072003702 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1051072003703 Response regulator receiver domain; Region: Response_reg; pfam00072 1051072003704 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 1051072003705 active site 1051072003706 phosphorylation site [posttranslational modification] 1051072003707 intermolecular recognition site; other site 1051072003708 dimerization interface [polypeptide binding]; other site 1051072003709 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1051072003710 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1051072003711 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1051072003712 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1051072003713 Histidine kinase; Region: His_kinase; pfam06580 1051072003714 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 1051072003715 Mg2+ binding site [ion binding]; other site 1051072003716 G-X-G motif; other site 1051072003717 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1051072003718 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1051072003719 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1051072003720 active site 1051072003721 phosphorylation site [posttranslational modification] 1051072003722 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; cl00025 1051072003723 active pocket/dimerization site; other site 1051072003724 active site 1051072003725 phosphorylation site [posttranslational modification] 1051072003726 Predicted membrane protein [Function unknown]; Region: COG2855 1051072003727 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1051072003728 SelR domain; Region: SelR; pfam01641 1051072003729 GTP-binding protein LepA; Provisional; Region: PRK05433 1051072003730 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1051072003731 G1 box; other site 1051072003732 putative GEF interaction site [polypeptide binding]; other site 1051072003733 GTP/Mg2+ binding site [chemical binding]; other site 1051072003734 Switch I region; other site 1051072003735 G2 box; other site 1051072003736 G3 box; other site 1051072003737 Switch II region; other site 1051072003738 G4 box; other site 1051072003739 G5 box; other site 1051072003740 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 1051072003741 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 1051072003742 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1051072003743 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1051072003744 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 1051072003745 core dimer interface [polypeptide binding]; other site 1051072003746 L10 interface [polypeptide binding]; other site 1051072003747 L11 interface [polypeptide binding]; other site 1051072003748 putative EF-Tu interaction site [polypeptide binding]; other site 1051072003749 putative EF-G interaction site [polypeptide binding]; other site 1051072003750 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 1051072003751 23S rRNA interface [nucleotide binding]; other site 1051072003752 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1051072003753 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 1051072003754 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1051072003755 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 1051072003756 active site 1051072003757 motif I; other site 1051072003758 motif II; other site 1051072003759 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 1051072003760 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1051072003761 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 1051072003762 active site 1051072003763 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 1051072003764 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1051072003765 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 1051072003766 FeS/SAM binding site; other site 1051072003767 HemN C-terminal domain; Region: HemN_C; pfam06969 1051072003768 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1051072003769 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1051072003770 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 1051072003771 active site 1051072003772 substrate binding site [chemical binding]; other site 1051072003773 metal binding site [ion binding]; metal-binding site 1051072003774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1051072003775 YbbR-like protein; Region: YbbR; pfam07949 1051072003776 YbbR-like protein; Region: YbbR; pfam07949 1051072003777 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1051072003778 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1051072003779 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1051072003780 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1051072003781 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1051072003782 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1051072003783 catalytic triad [active] 1051072003784 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1051072003785 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1051072003786 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1051072003787 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 1051072003788 E3 interaction surface; other site 1051072003789 lipoyl attachment site [posttranslational modification]; other site 1051072003790 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 1051072003791 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1051072003792 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1051072003793 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1051072003794 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 1051072003795 E3 interaction surface; other site 1051072003796 lipoyl attachment site [posttranslational modification]; other site 1051072003797 e3 binding domain; Region: E3_binding; pfam02817 1051072003798 e3 binding domain; Region: E3_binding; pfam02817 1051072003799 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1051072003800 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1051072003801 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 1051072003802 alpha subunit interface [polypeptide binding]; other site 1051072003803 TPP binding site [chemical binding]; other site 1051072003804 heterodimer interface [polypeptide binding]; other site 1051072003805 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1051072003806 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1051072003807 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 1051072003808 tetramer interface [polypeptide binding]; other site 1051072003809 TPP-binding site [chemical binding]; other site 1051072003810 heterodimer interface [polypeptide binding]; other site 1051072003811 phosphorylation loop region [posttranslational modification] 1051072003812 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1051072003813 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072003814 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072003815 ABC transporter; Region: ABC_tran_2; pfam12848 1051072003816 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072003817 Predicted esterase [General function prediction only]; Region: COG0627 1051072003818 S-formylglutathione hydrolase; Region: PLN02442 1051072003819 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1051072003820 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1051072003821 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1051072003822 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1051072003823 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1051072003824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072003825 Walker A/P-loop; other site 1051072003826 ATP binding site [chemical binding]; other site 1051072003827 Q-loop/lid; other site 1051072003828 ABC transporter signature motif; other site 1051072003829 Walker B; other site 1051072003830 D-loop; other site 1051072003831 H-loop/switch region; other site 1051072003832 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; cd06574 1051072003833 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1051072003834 TM-ABC transporter signature motif; other site 1051072003835 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1051072003836 zinc binding site [ion binding]; other site 1051072003837 putative ligand binding site [chemical binding]; other site 1051072003838 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 1051072003839 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1051072003840 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; cl02429 1051072003841 TPR motif; other site 1051072003842 binding surface 1051072003843 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 1051072003844 binding surface 1051072003845 TPR motif; other site 1051072003846 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1051072003847 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1051072003848 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 1051072003849 putative active site [active] 1051072003850 nucleotide binding site [chemical binding]; other site 1051072003851 nudix motif; other site 1051072003852 putative metal binding site [ion binding]; other site 1051072003853 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1051072003854 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1051072003855 NAD binding site [chemical binding]; other site 1051072003856 substrate binding site [chemical binding]; other site 1051072003857 homodimer interface [polypeptide binding]; other site 1051072003858 active site 1051072003859 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1051072003860 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1051072003861 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1051072003862 substrate binding site; other site 1051072003863 tetramer interface; other site 1051072003864 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1051072003865 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1051072003866 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1051072003867 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1051072003868 Family of unknown function (DUF633); Region: DUF633; pfam04816 1051072003869 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1051072003870 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1051072003871 minor groove reading motif; other site 1051072003872 helix-hairpin-helix signature motif; other site 1051072003873 substrate binding pocket [chemical binding]; other site 1051072003874 active site 1051072003875 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1051072003876 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1051072003877 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1051072003878 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1051072003879 active site 1051072003880 conserved hypothetical protein; Region: TIGR02328 1051072003881 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1051072003882 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1051072003883 DHH family; Region: DHH; pfam01368 1051072003884 DHHA1 domain; Region: DHHA1; pfam02272 1051072003885 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 1051072003886 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1051072003887 classical (c) SDRs; Region: SDR_c; cd05233 1051072003888 NAD(P) binding site [chemical binding]; other site 1051072003889 active site 1051072003890 ribonuclease Z; Region: RNase_Z; TIGR02651 1051072003891 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1051072003892 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1051072003893 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1051072003894 HflX GTPase family; Region: HflX; cd01878 1051072003895 G1 box; other site 1051072003896 GTP/Mg2+ binding site [chemical binding]; other site 1051072003897 Switch I region; other site 1051072003898 G2 box; other site 1051072003899 G3 box; other site 1051072003900 Switch II region; other site 1051072003901 G4 box; other site 1051072003902 G5 box; other site 1051072003903 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1051072003904 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1051072003905 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 1051072003906 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1051072003907 4-alpha-glucanotransferase; Provisional; Region: PRK14508 1051072003908 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1051072003909 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1051072003910 DNA binding site [nucleotide binding] 1051072003911 domain linker motif; other site 1051072003912 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 1051072003913 putative dimerization interface [polypeptide binding]; other site 1051072003914 putative ligand binding site [chemical binding]; other site 1051072003915 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1051072003916 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1051072003917 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 1051072003918 dimer interface [polypeptide binding]; other site 1051072003919 conserved gate region; other site 1051072003920 ABC-ATPase subunit interface; other site 1051072003921 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1051072003922 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 1051072003923 dimer interface [polypeptide binding]; other site 1051072003924 conserved gate region; other site 1051072003925 putative PBP binding loops; other site 1051072003926 ABC-ATPase subunit interface; other site 1051072003927 Predicted integral membrane protein [Function unknown]; Region: COG5521 1051072003928 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1051072003929 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 1051072003930 dimer interface [polypeptide binding]; other site 1051072003931 conserved gate region; other site 1051072003932 putative PBP binding loops; other site 1051072003933 ABC-ATPase subunit interface; other site 1051072003934 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 1051072003935 dimer interface [polypeptide binding]; other site 1051072003936 conserved gate region; other site 1051072003937 putative PBP binding loops; other site 1051072003938 ABC-ATPase subunit interface; other site 1051072003939 Alpha amylase catalytic domain found in maltogenic amylases, cyclodextrin glycosyltransferase, and related proteins; Region: AmyAc_AmyMalt_CGTase_like; cd11320 1051072003940 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1051072003941 Ca binding site [ion binding]; other site 1051072003942 active site 1051072003943 catalytic site [active] 1051072003944 Aamy_C domain; Region: Aamy_C; smart00632 1051072003945 IPT domain (domain D) of cyclodextrin glycosyltransferase (CGTase) and similar enzymes. These enzymes are involved in the enzymatic hydrolysis of alpha-1,4 linkages of starch polymers and belong to the glycosyl hydrolase family 13. Most consist of three...; Region: IPT_CGTD; cd00604 1051072003946 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 1051072003947 starch-binding site 2 [chemical binding]; other site 1051072003948 starch-binding site 1 [chemical binding]; other site 1051072003949 maltodextrin glucosidase; Provisional; Region: PRK10785 1051072003950 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1051072003951 homodimer interface [polypeptide binding]; other site 1051072003952 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1051072003953 active site 1051072003954 homodimer interface [polypeptide binding]; other site 1051072003955 catalytic site [active] 1051072003956 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1051072003957 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1051072003958 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1051072003959 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1051072003960 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 1051072003961 DltD N-terminal region; Region: DltD_N; pfam04915 1051072003962 DltD central region; Region: DltD_M; pfam04918 1051072003963 DltD C-terminal region; Region: DltD_C; pfam04914 1051072003964 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 1051072003965 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1051072003966 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1051072003967 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1051072003968 acyl-activating enzyme (AAE) consensus motif; other site 1051072003969 AMP binding site [chemical binding]; other site 1051072003970 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 1051072003971 excinuclease ABC subunit B; Provisional; Region: PRK05298 1051072003972 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 1051072003973 ATP binding site [chemical binding]; other site 1051072003974 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 1051072003975 nucleotide binding region [chemical binding]; other site 1051072003976 ATP-binding site [chemical binding]; other site 1051072003977 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1051072003978 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 1051072003979 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1051072003980 substrate binding pocket [chemical binding]; other site 1051072003981 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 1051072003982 hinge residues; other site 1051072003983 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 1051072003984 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1051072003985 substrate binding pocket [chemical binding]; other site 1051072003986 membrane-bound complex binding site; other site 1051072003987 hinge residues; other site 1051072003988 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 1051072003989 dimer interface [polypeptide binding]; other site 1051072003990 conserved gate region; other site 1051072003991 putative PBP binding loops; other site 1051072003992 ABC-ATPase subunit interface; other site 1051072003993 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1051072003994 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1051072003995 Walker A/P-loop; other site 1051072003996 ATP binding site [chemical binding]; other site 1051072003997 Q-loop/lid; other site 1051072003998 ABC transporter signature motif; other site 1051072003999 Walker B; other site 1051072004000 D-loop; other site 1051072004001 H-loop/switch region; other site 1051072004002 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1051072004003 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1051072004004 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1051072004005 hydrophobic ligand binding site; other site 1051072004006 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 1051072004007 active site 1051072004008 methionine cluster; other site 1051072004009 phosphorylation site [posttranslational modification] 1051072004010 metal binding site [ion binding]; metal-binding site 1051072004011 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 1051072004012 active site 1051072004013 P-loop; other site 1051072004014 phosphorylation site [posttranslational modification] 1051072004015 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1051072004016 HTH domain; Region: HTH_11; pfam08279 1051072004017 Mga helix-turn-helix domain; Region: Mga; pfam05043 1051072004018 PRD domain; Region: PRD; pfam00874 1051072004019 PRD domain; Region: PRD; pfam00874 1051072004020 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 1051072004021 active site 1051072004022 P-loop; other site 1051072004023 phosphorylation site [posttranslational modification] 1051072004024 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 1051072004025 active site 1051072004026 phosphorylation site [posttranslational modification] 1051072004027 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1051072004028 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1051072004029 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1051072004030 beta-galactosidase; Region: BGL; TIGR03356 1051072004031 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1051072004032 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1051072004033 GTP1/OBG; Region: GTP1_OBG; pfam01018 1051072004034 Obg GTPase; Region: Obg; cd01898 1051072004035 G1 box; other site 1051072004036 GTP/Mg2+ binding site [chemical binding]; other site 1051072004037 Switch I region; other site 1051072004038 G2 box; other site 1051072004039 G3 box; other site 1051072004040 Switch II region; other site 1051072004041 G4 box; other site 1051072004042 G5 box; other site 1051072004043 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1051072004044 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1051072004045 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1051072004046 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1051072004047 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 1051072004048 RNA binding surface [nucleotide binding]; other site 1051072004049 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1051072004050 active site 1051072004051 uracil binding [chemical binding]; other site 1051072004052 Predicted thioesterase [General function prediction only]; Region: COG5496 1051072004053 benzoate transport; Region: 2A0115; TIGR00895 1051072004054 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 1051072004055 putative substrate translocation pore; other site 1051072004056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 1051072004057 hypothetical protein; Provisional; Region: PRK13663 1051072004058 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 1051072004059 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1051072004060 CoenzymeA binding site [chemical binding]; other site 1051072004061 subunit interaction site [polypeptide binding]; other site 1051072004062 PHB binding site; other site 1051072004063 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1051072004064 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1051072004065 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1051072004066 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 1051072004067 motif II; other site 1051072004068 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1051072004069 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1051072004070 active site 1051072004071 intersubunit interface [polypeptide binding]; other site 1051072004072 catalytic residue [active] 1051072004073 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1051072004074 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 1051072004075 substrate binding site [chemical binding]; other site 1051072004076 ATP binding site [chemical binding]; other site 1051072004077 hypothetical protein; Provisional; Region: PRK09273 1051072004078 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 1051072004079 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 1051072004080 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 1051072004081 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1051072004082 NADP binding site [chemical binding]; other site 1051072004083 homodimer interface [polypeptide binding]; other site 1051072004084 active site 1051072004085 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 1051072004086 active pocket/dimerization site; other site 1051072004087 active site 1051072004088 phosphorylation site [posttranslational modification] 1051072004089 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 1051072004090 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 1051072004091 active site 1051072004092 phosphorylation site [posttranslational modification] 1051072004093 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1051072004094 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1051072004095 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1051072004096 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1051072004097 DNA binding site [nucleotide binding] 1051072004098 domain linker motif; other site 1051072004099 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1051072004100 putative dimerization interface [polypeptide binding]; other site 1051072004101 putative ligand binding site [chemical binding]; other site 1051072004102 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1051072004103 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1051072004104 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1051072004105 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1051072004106 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1051072004107 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1051072004108 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1051072004109 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1051072004110 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1051072004111 Zn2+ binding site [ion binding]; other site 1051072004112 Mg2+ binding site [ion binding]; other site 1051072004113 sugar phosphate phosphatase; Provisional; Region: PRK10513 1051072004114 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 1051072004115 active site 1051072004116 motif I; other site 1051072004117 motif II; other site 1051072004118 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 1051072004119 FemAB family; Region: FemAB; pfam02388 1051072004120 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1051072004121 FemAB family; Region: FemAB; pfam02388 1051072004122 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1051072004123 triosephosphate isomerase; Provisional; Region: PRK14567 1051072004124 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 1051072004125 substrate binding site [chemical binding]; other site 1051072004126 dimer interface [polypeptide binding]; other site 1051072004127 catalytic triad [active] 1051072004128 elongation factor Tu; Reviewed; Region: PRK00049 1051072004129 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1051072004130 G1 box; other site 1051072004131 GEF interaction site [polypeptide binding]; other site 1051072004132 GTP/Mg2+ binding site [chemical binding]; other site 1051072004133 Switch I region; other site 1051072004134 G2 box; other site 1051072004135 G3 box; other site 1051072004136 Switch II region; other site 1051072004137 G4 box; other site 1051072004138 G5 box; other site 1051072004139 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 1051072004140 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 1051072004141 Antibiotic Binding Site [chemical binding]; other site 1051072004142 Viral enhancin protein; Region: Enhancin; pfam03272 1051072004143 Viral enhancin protein; Region: Enhancin; pfam03272 1051072004144 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 1051072004145 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 1051072004146 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 1051072004147 DNA binding residues [nucleotide binding] 1051072004148 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 1051072004149 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 1051072004150 putative transposase OrfB; Reviewed; Region: PHA02517 1051072004151 HTH-like domain; Region: HTH_21; pfam13276 1051072004152 Integrase core domain; Region: rve; pfam00665 1051072004153 Integrase core domain; Region: rve_2; pfam13333 1051072004154 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1051072004155 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1051072004156 Helix-turn-helix domain; Region: HTH_28; pfam13518 1051072004157 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1051072004158 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 1051072004159 motif II; other site 1051072004160 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1051072004161 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 1051072004162 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1051072004163 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 1051072004164 dimer interface [polypeptide binding]; other site 1051072004165 putative anticodon binding site; other site 1051072004166 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 1051072004167 motif 1; other site 1051072004168 active site 1051072004169 motif 2; other site 1051072004170 motif 3; other site 1051072004171 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 1051072004172 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1051072004173 Peptidase family U32; Region: Peptidase_U32; pfam01136 1051072004174 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1051072004175 Peptidase family U32; Region: Peptidase_U32; pfam01136 1051072004176 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 1051072004177 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1051072004178 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1051072004179 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1051072004180 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 1051072004181 Hpr binding site; other site 1051072004182 active site 1051072004183 homohexamer subunit interaction site [polypeptide binding]; other site 1051072004184 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 1051072004185 hypothetical protein; Provisional; Region: PRK04351 1051072004186 SprT homologues; Region: SprT; cl01182 1051072004187 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1051072004188 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1051072004189 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1051072004190 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 1051072004191 RNA binding site [nucleotide binding]; other site 1051072004192 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 1051072004193 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1051072004194 Walker A/P-loop; other site 1051072004195 ATP binding site [chemical binding]; other site 1051072004196 Q-loop/lid; other site 1051072004197 ABC transporter signature motif; other site 1051072004198 Walker B; other site 1051072004199 D-loop; other site 1051072004200 H-loop/switch region; other site 1051072004201 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1051072004202 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 1051072004203 dimer interface [polypeptide binding]; other site 1051072004204 conserved gate region; other site 1051072004205 putative PBP binding loops; other site 1051072004206 ABC-ATPase subunit interface; other site 1051072004207 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1051072004208 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 1051072004209 dimer interface [polypeptide binding]; other site 1051072004210 conserved gate region; other site 1051072004211 putative PBP binding loops; other site 1051072004212 ABC-ATPase subunit interface; other site 1051072004213 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 1051072004214 PBP superfamily domain; Region: PBP_like_2; cl17296 1051072004215 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1051072004216 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 1051072004217 dimer interface [polypeptide binding]; other site 1051072004218 phosphorylation site [posttranslational modification] 1051072004219 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 1051072004220 ATP binding site [chemical binding]; other site 1051072004221 Mg2+ binding site [ion binding]; other site 1051072004222 G-X-G motif; other site 1051072004223 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1051072004224 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 1051072004225 active site 1051072004226 phosphorylation site [posttranslational modification] 1051072004227 intermolecular recognition site; other site 1051072004228 dimerization interface [polypeptide binding]; other site 1051072004229 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 1051072004230 DNA binding site [nucleotide binding] 1051072004231 Predicted permeases [General function prediction only]; Region: COG0701 1051072004232 Predicted membrane protein [Function unknown]; Region: COG3689 1051072004233 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1051072004234 beta-galactosidase; Region: BGL; TIGR03356 1051072004235 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1051072004236 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 1051072004237 active site turn [active] 1051072004238 phosphorylation site [posttranslational modification] 1051072004239 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1051072004240 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1051072004241 HPr interaction site; other site 1051072004242 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1051072004243 active site 1051072004244 phosphorylation site [posttranslational modification] 1051072004245 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1051072004246 CAT RNA binding domain; Region: CAT_RBD; pfam03123 1051072004247 PRD domain; Region: PRD; pfam00874 1051072004248 PRD domain; Region: PRD; pfam00874 1051072004249 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1051072004250 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1051072004251 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 1051072004252 P loop; other site 1051072004253 GTP binding site [chemical binding]; other site 1051072004254 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1051072004255 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 1051072004256 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 1051072004257 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1051072004258 active site 1051072004259 motif I; other site 1051072004260 motif II; other site 1051072004261 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 1051072004262 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1051072004263 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1051072004264 Walker A/P-loop; other site 1051072004265 ATP binding site [chemical binding]; other site 1051072004266 Q-loop/lid; other site 1051072004267 ABC transporter signature motif; other site 1051072004268 Walker B; other site 1051072004269 D-loop; other site 1051072004270 H-loop/switch region; other site 1051072004271 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 1051072004272 nucleophilic elbow; other site 1051072004273 catalytic triad; other site 1051072004274 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1051072004275 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1051072004276 Walker A/P-loop; other site 1051072004277 ATP binding site [chemical binding]; other site 1051072004278 Q-loop/lid; other site 1051072004279 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1051072004280 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1051072004281 ABC transporter signature motif; other site 1051072004282 Walker B; other site 1051072004283 D-loop; other site 1051072004284 H-loop/switch region; other site 1051072004285 ribonuclease III; Reviewed; Region: rnc; PRK00102 1051072004286 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 1051072004287 dimerization interface [polypeptide binding]; other site 1051072004288 active site 1051072004289 metal binding site [ion binding]; metal-binding site 1051072004290 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 1051072004291 dsRNA binding site [nucleotide binding]; other site 1051072004292 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 1051072004293 Mga helix-turn-helix domain; Region: Mga; pfam05043 1051072004294 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 1051072004295 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1051072004296 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1051072004297 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1051072004298 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 1051072004299 putative active site [active] 1051072004300 heme pocket [chemical binding]; other site 1051072004301 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 1051072004302 dimer interface [polypeptide binding]; other site 1051072004303 phosphorylation site [posttranslational modification] 1051072004304 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 1051072004305 ATP binding site [chemical binding]; other site 1051072004306 Mg2+ binding site [ion binding]; other site 1051072004307 G-X-G motif; other site 1051072004308 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1051072004309 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 1051072004310 active site 1051072004311 phosphorylation site [posttranslational modification] 1051072004312 intermolecular recognition site; other site 1051072004313 dimerization interface [polypeptide binding]; other site 1051072004314 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 1051072004315 DNA binding site [nucleotide binding] 1051072004316 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 1051072004317 acyl-CoA synthetase; Validated; Region: PRK07638 1051072004318 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1051072004319 acyl-activating enzyme (AAE) consensus motif; other site 1051072004320 AMP binding site [chemical binding]; other site 1051072004321 active site 1051072004322 CoA binding site [chemical binding]; other site 1051072004323 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1051072004324 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 1051072004325 dimer interface [polypeptide binding]; other site 1051072004326 active site 1051072004327 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1051072004328 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1051072004329 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1051072004330 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 1051072004331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072004332 Walker A/P-loop; other site 1051072004333 ATP binding site [chemical binding]; other site 1051072004334 Q-loop/lid; other site 1051072004335 ABC transporter signature motif; other site 1051072004336 Walker B; other site 1051072004337 D-loop; other site 1051072004338 H-loop/switch region; other site 1051072004339 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 1051072004340 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1051072004341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072004342 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1051072004343 Walker A/P-loop; other site 1051072004344 ATP binding site [chemical binding]; other site 1051072004345 Q-loop/lid; other site 1051072004346 ABC transporter signature motif; other site 1051072004347 Walker B; other site 1051072004348 D-loop; other site 1051072004349 H-loop/switch region; other site 1051072004350 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1051072004351 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 1051072004352 dimer interface [polypeptide binding]; other site 1051072004353 phosphorylation site [posttranslational modification] 1051072004354 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 1051072004355 ATP binding site [chemical binding]; other site 1051072004356 Mg2+ binding site [ion binding]; other site 1051072004357 G-X-G motif; other site 1051072004358 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1051072004359 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 1051072004360 active site 1051072004361 phosphorylation site [posttranslational modification] 1051072004362 intermolecular recognition site; other site 1051072004363 dimerization interface [polypeptide binding]; other site 1051072004364 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 1051072004365 DNA binding site [nucleotide binding] 1051072004366 Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases; Region: Peptidases_S8_Lantibiotic_specific_protease; cd07482 1051072004367 active site 1051072004368 catalytic triad [active] 1051072004369 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1051072004370 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 1051072004371 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1051072004372 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 1051072004373 active site 1051072004374 dimer interface [polypeptide binding]; other site 1051072004375 motif 1; other site 1051072004376 motif 2; other site 1051072004377 motif 3; other site 1051072004378 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 1051072004379 anticodon binding site; other site 1051072004380 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1051072004381 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 1051072004382 putative ADP-binding pocket [chemical binding]; other site 1051072004383 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1051072004384 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 1051072004385 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 1051072004386 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 1051072004387 active site 1051072004388 Na/Ca binding site [ion binding]; other site 1051072004389 catalytic site [active] 1051072004390 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 1051072004391 catabolite control protein A; Region: ccpA; TIGR01481 1051072004392 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1051072004393 DNA binding site [nucleotide binding] 1051072004394 domain linker motif; other site 1051072004395 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 1051072004396 dimerization interface [polypeptide binding]; other site 1051072004397 effector binding site; other site 1051072004398 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1051072004399 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1051072004400 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 1051072004401 active site 1051072004402 AAA domain; Region: AAA_25; pfam13481 1051072004403 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1051072004404 Walker A/P-loop; other site 1051072004405 ATP binding site [chemical binding]; other site 1051072004406 ABC transporter; Region: ABC_tran; pfam00005 1051072004407 Q-loop/lid; other site 1051072004408 ABC transporter signature motif; other site 1051072004409 Walker B; other site 1051072004410 D-loop; other site 1051072004411 H-loop/switch region; other site 1051072004412 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 1051072004413 non-specific DNA binding site [nucleotide binding]; other site 1051072004414 salt bridge; other site 1051072004415 sequence-specific DNA binding site [nucleotide binding]; other site 1051072004416 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1051072004417 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1051072004418 dimer interface [polypeptide binding]; other site 1051072004419 FMN binding site [chemical binding]; other site 1051072004420 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1051072004421 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1051072004422 Ligand binding site; other site 1051072004423 Putative Catalytic site; other site 1051072004424 DXD motif; other site 1051072004425 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 1051072004426 SmpB-tmRNA interface; other site 1051072004427 ribonuclease R; Region: RNase_R; TIGR02063 1051072004428 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1051072004429 RNB domain; Region: RNB; pfam00773 1051072004430 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 1051072004431 RNA binding site [nucleotide binding]; other site 1051072004432 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 1051072004433 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 1051072004434 TQXA domain; Region: TQXA_dom; TIGR03934 1051072004435 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1051072004436 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 1051072004437 TQXA domain; Region: TQXA_dom; TIGR03934 1051072004438 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1051072004439 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 1051072004440 CoA-binding site [chemical binding]; other site 1051072004441 ATP-binding [chemical binding]; other site 1051072004442 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1051072004443 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1051072004444 DNA binding site [nucleotide binding] 1051072004445 catalytic residue [active] 1051072004446 H2TH interface [polypeptide binding]; other site 1051072004447 putative catalytic residues [active] 1051072004448 turnover-facilitating residue; other site 1051072004449 intercalation triad [nucleotide binding]; other site 1051072004450 8OG recognition residue [nucleotide binding]; other site 1051072004451 putative reading head residues; other site 1051072004452 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1051072004453 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1051072004454 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 1051072004455 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1051072004456 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 1051072004457 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1051072004458 active site 1051072004459 catalytic residues [active] 1051072004460 Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated...; Region: PTX; cl00102 1051072004461 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1051072004462 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1051072004463 Asp-box motif; other site 1051072004464 Asp-box motif; other site 1051072004465 catalytic site [active] 1051072004466 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1051072004467 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1051072004468 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1051072004469 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1051072004470 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 1051072004471 active site 1051072004472 methionine cluster; other site 1051072004473 phosphorylation site [posttranslational modification] 1051072004474 metal binding site [ion binding]; metal-binding site 1051072004475 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 1051072004476 active site 1051072004477 P-loop; other site 1051072004478 phosphorylation site [posttranslational modification] 1051072004479 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 1051072004480 MarR family; Region: MarR_2; cl17246 1051072004481 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1051072004482 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1051072004483 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 1051072004484 nudix motif; other site 1051072004485 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1051072004486 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 1051072004487 catalytic residues [active] 1051072004488 catalytic nucleophile [active] 1051072004489 Recombinase; Region: Recombinase; pfam07508 1051072004490 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1051072004491 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 1051072004492 catalytic residues [active] 1051072004493 Recombinase; Region: Recombinase; pfam07508 1051072004494 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072004495 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072004496 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072004497 AAA domain; Region: AAA_23; pfam13476 1051072004498 Walker A/P-loop; other site 1051072004499 ATP binding site [chemical binding]; other site 1051072004500 Zeta toxin; Region: Zeta_toxin; pfam06414 1051072004501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1051072004502 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1051072004503 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 1051072004504 non-specific DNA binding site [nucleotide binding]; other site 1051072004505 salt bridge; other site 1051072004506 sequence-specific DNA binding site [nucleotide binding]; other site 1051072004507 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 1051072004508 Toprim-like; Region: Toprim_2; pfam13155 1051072004509 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1051072004510 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1051072004511 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1051072004512 Walker A/P-loop; other site 1051072004513 ATP binding site [chemical binding]; other site 1051072004514 Q-loop/lid; other site 1051072004515 ABC transporter signature motif; other site 1051072004516 Walker B; other site 1051072004517 D-loop; other site 1051072004518 H-loop/switch region; other site 1051072004519 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 1051072004520 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 1051072004521 FeS/SAM binding site; other site 1051072004522 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 1051072004523 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 1051072004524 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1051072004525 FeS/SAM binding site; other site 1051072004526 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1051072004527 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1051072004528 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 1051072004529 non-specific DNA binding site [nucleotide binding]; other site 1051072004530 salt bridge; other site 1051072004531 sequence-specific DNA binding site [nucleotide binding]; other site 1051072004532 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1051072004533 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1051072004534 nucleotide binding region [chemical binding]; other site 1051072004535 ATP-binding site [chemical binding]; other site 1051072004536 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1051072004537 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1051072004538 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1051072004539 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1051072004540 putative cross-wall-targeting lipoprotein signal; Region: strep_RK_lipo; TIGR03726 1051072004541 Glucan-binding protein C; Region: GbpC; pfam08363 1051072004542 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072004543 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072004544 CHAP domain; Region: CHAP; pfam05257 1051072004545 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1051072004546 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1051072004547 AAA-like domain; Region: AAA_10; pfam12846 1051072004548 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1051072004549 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1051072004550 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 1051072004551 putative active site [active] 1051072004552 putative NTP binding site [chemical binding]; other site 1051072004553 putative nucleic acid binding site [nucleotide binding]; other site 1051072004554 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1051072004555 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1051072004556 active site 1051072004557 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 1051072004558 PrgI family protein; Region: PrgI; pfam12666 1051072004559 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1051072004560 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1051072004561 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 1051072004562 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1051072004563 putative active site [active] 1051072004564 putative NTP binding site [chemical binding]; other site 1051072004565 putative nucleic acid binding site [nucleotide binding]; other site 1051072004566 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 1051072004567 Walker A motif; other site 1051072004568 ATP binding site [chemical binding]; other site 1051072004569 Walker B motif; other site 1051072004570 CAAX protease self-immunity; Region: Abi; pfam02517 1051072004571 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1051072004572 DNA binding site [nucleotide binding] 1051072004573 substrate interaction site [chemical binding]; other site 1051072004574 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1051072004575 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1051072004576 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1051072004577 cofactor binding site; other site 1051072004578 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1051072004579 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 1051072004580 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1051072004581 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1051072004582 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1051072004583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1051072004584 NAD(P) binding site [chemical binding]; other site 1051072004585 active site 1051072004586 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1051072004587 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1051072004588 putative acyltransferase; Provisional; Region: PRK05790 1051072004589 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 1051072004590 dimer interface [polypeptide binding]; other site 1051072004591 active site 1051072004592 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1051072004593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1051072004594 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 1051072004595 dimerization interface [polypeptide binding]; other site 1051072004596 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1051072004597 GTPase Era; Reviewed; Region: era; PRK00089 1051072004598 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1051072004599 G1 box; other site 1051072004600 GTP/Mg2+ binding site [chemical binding]; other site 1051072004601 Switch I region; other site 1051072004602 G2 box; other site 1051072004603 Switch II region; other site 1051072004604 G3 box; other site 1051072004605 G4 box; other site 1051072004606 G5 box; other site 1051072004607 KH domain; Region: KH_2; pfam07650 1051072004608 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1051072004609 metal-binding heat shock protein; Provisional; Region: PRK00016 1051072004610 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1051072004611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1051072004612 Coenzyme A binding pocket [chemical binding]; other site 1051072004613 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1051072004614 putative uracil binding site [chemical binding]; other site 1051072004615 putative active site [active] 1051072004616 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1051072004617 PhoH-like protein; Region: PhoH; pfam02562 1051072004618 hypothetical protein; Provisional; Region: PRK13672 1051072004619 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1051072004620 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1051072004621 S1 domain; Region: S1_2; pfam13509 1051072004622 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1051072004623 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1051072004624 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 1051072004625 hinge region; other site 1051072004626 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 1051072004627 putative nucleotide binding site [chemical binding]; other site 1051072004628 uridine monophosphate binding site [chemical binding]; other site 1051072004629 homohexameric interface [polypeptide binding]; other site 1051072004630 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1051072004631 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1051072004632 Walker A/P-loop; other site 1051072004633 ATP binding site [chemical binding]; other site 1051072004634 Q-loop/lid; other site 1051072004635 ABC transporter signature motif; other site 1051072004636 Walker B; other site 1051072004637 D-loop; other site 1051072004638 H-loop/switch region; other site 1051072004639 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1051072004640 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1051072004641 Walker A/P-loop; other site 1051072004642 ATP binding site [chemical binding]; other site 1051072004643 Q-loop/lid; other site 1051072004644 ABC transporter signature motif; other site 1051072004645 Walker B; other site 1051072004646 D-loop; other site 1051072004647 H-loop/switch region; other site 1051072004648 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1051072004649 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 1051072004650 dimer interface [polypeptide binding]; other site 1051072004651 conserved gate region; other site 1051072004652 putative PBP binding loops; other site 1051072004653 ABC-ATPase subunit interface; other site 1051072004654 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1051072004655 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 1051072004656 dimer interface [polypeptide binding]; other site 1051072004657 conserved gate region; other site 1051072004658 putative PBP binding loops; other site 1051072004659 ABC-ATPase subunit interface; other site 1051072004660 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1051072004661 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1051072004662 substrate binding site [chemical binding]; other site 1051072004663 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 1051072004664 TQXA domain; Region: TQXA_dom; TIGR03934 1051072004665 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 1051072004666 mRNA/rRNA interface [nucleotide binding]; other site 1051072004667 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1051072004668 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 1051072004669 23S rRNA interface [nucleotide binding]; other site 1051072004670 L7/L12 interface [polypeptide binding]; other site 1051072004671 putative thiostrepton binding site; other site 1051072004672 L25 interface [polypeptide binding]; other site 1051072004673 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1051072004674 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1051072004675 DNA binding site [nucleotide binding] 1051072004676 domain linker motif; other site 1051072004677 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1051072004678 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1051072004679 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1051072004680 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1051072004681 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 1051072004682 active site 1051072004683 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1051072004684 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 1051072004685 ABC-ATPase subunit interface; other site 1051072004686 dimer interface [polypeptide binding]; other site 1051072004687 putative PBP binding regions; other site 1051072004688 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1051072004689 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1051072004690 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1051072004691 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 1051072004692 metal binding site [ion binding]; metal-binding site 1051072004693 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1051072004694 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1051072004695 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1051072004696 FeoA domain; Region: FeoA; pfam04023 1051072004697 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1051072004698 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1051072004699 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 1051072004700 dimer interface [polypeptide binding]; other site 1051072004701 ADP-ribose binding site [chemical binding]; other site 1051072004702 active site 1051072004703 nudix motif; other site 1051072004704 metal binding site [ion binding]; metal-binding site 1051072004705 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1051072004706 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1051072004707 Substrate binding site; other site 1051072004708 Mg++ binding site; other site 1051072004709 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 1051072004710 active site 1051072004711 substrate binding site [chemical binding]; other site 1051072004712 CoA binding site [chemical binding]; other site 1051072004713 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1051072004714 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1051072004715 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1051072004716 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 1051072004717 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 1051072004718 classical (c) SDRs; Region: SDR_c; cd05233 1051072004719 NAD(P) binding site [chemical binding]; other site 1051072004720 active site 1051072004721 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1051072004722 putative transposase OrfB; Reviewed; Region: PHA02517 1051072004723 HTH-like domain; Region: HTH_21; pfam13276 1051072004724 Integrase core domain; Region: rve; pfam00665 1051072004725 Integrase core domain; Region: rve_2; pfam13333 1051072004726 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1051072004727 Transposase; Region: HTH_Tnp_1; cl17663 1051072004728 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1051072004729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1051072004730 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1051072004731 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1051072004732 active site 1051072004733 HIGH motif; other site 1051072004734 nucleotide binding site [chemical binding]; other site 1051072004735 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1051072004736 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1051072004737 active site 1051072004738 KMSKS motif; other site 1051072004739 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1051072004740 tRNA binding surface [nucleotide binding]; other site 1051072004741 anticodon binding site; other site 1051072004742 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1051072004743 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1051072004744 AAA domain; Region: AAA_17; pfam13207 1051072004745 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1051072004746 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1051072004747 hypothetical protein; Provisional; Region: PRK07758 1051072004748 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 1051072004749 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13397 1051072004750 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 1051072004751 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1051072004752 active site 1051072004753 dimer interface [polypeptide binding]; other site 1051072004754 metal binding site [ion binding]; metal-binding site 1051072004755 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1051072004756 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1051072004757 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1051072004758 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1051072004759 shikimate binding site; other site 1051072004760 NAD(P) binding site [chemical binding]; other site 1051072004761 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 1051072004762 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1051072004763 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1051072004764 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1051072004765 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 1051072004766 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 1051072004767 active site 1051072004768 phosphorylation site [posttranslational modification] 1051072004769 intermolecular recognition site; other site 1051072004770 dimerization interface [polypeptide binding]; other site 1051072004771 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1051072004772 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1051072004773 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1051072004774 dimerization interface [polypeptide binding]; other site 1051072004775 Histidine kinase; Region: His_kinase; pfam06580 1051072004776 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1051072004777 ATP binding site [chemical binding]; other site 1051072004778 Mg2+ binding site [ion binding]; other site 1051072004779 G-X-G motif; other site 1051072004780 Predicted integral membrane protein [Function unknown]; Region: COG5578 1051072004781 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1051072004782 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1051072004783 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 1051072004784 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1051072004785 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 1051072004786 dimer interface [polypeptide binding]; other site 1051072004787 conserved gate region; other site 1051072004788 putative PBP binding loops; other site 1051072004789 ABC-ATPase subunit interface; other site 1051072004790 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1051072004791 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 1051072004792 ABC-ATPase subunit interface; other site 1051072004793 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1051072004794 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1051072004795 nucleotide binding site [chemical binding]; other site 1051072004796 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1051072004797 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1051072004798 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1051072004799 beta-galactosidase; Region: BGL; TIGR03356 1051072004800 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 1051072004801 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1051072004802 DNA-binding site [nucleotide binding]; DNA binding site 1051072004803 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1051072004804 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 1051072004805 ligand binding site [chemical binding]; other site 1051072004806 dimerization interface [polypeptide binding]; other site 1051072004807 Uncharacterized conserved protein [Function unknown]; Region: COG3538 1051072004808 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 1051072004809 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1051072004810 N-terminal catalytic domain of SPGH38, a putative alpha-mannosidase of Streptococcus pyogenes, and its prokaryotic homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_SpGH38_like; cd10814 1051072004811 homodimer interface [polypeptide binding]; other site 1051072004812 active site 1051072004813 catalytic site [active] 1051072004814 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1051072004815 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1051072004816 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1051072004817 Walker A/P-loop; other site 1051072004818 ATP binding site [chemical binding]; other site 1051072004819 Q-loop/lid; other site 1051072004820 ABC transporter signature motif; other site 1051072004821 Walker B; other site 1051072004822 D-loop; other site 1051072004823 H-loop/switch region; other site 1051072004824 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1051072004825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1051072004826 Coenzyme A binding pocket [chemical binding]; other site 1051072004827 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1051072004828 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 1051072004829 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 1051072004830 putative active site [active] 1051072004831 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1051072004832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072004833 Walker A/P-loop; other site 1051072004834 ATP binding site [chemical binding]; other site 1051072004835 Q-loop/lid; other site 1051072004836 ABC transporter signature motif; other site 1051072004837 Walker B; other site 1051072004838 D-loop; other site 1051072004839 H-loop/switch region; other site 1051072004840 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 1051072004841 HlyD family secretion protein; Region: HlyD_3; pfam13437 1051072004842 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1051072004843 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1051072004844 ATP binding site [chemical binding]; other site 1051072004845 Mg2+ binding site [ion binding]; other site 1051072004846 G-X-G motif; other site 1051072004847 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1051072004848 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 1051072004849 active site 1051072004850 phosphorylation site [posttranslational modification] 1051072004851 intermolecular recognition site; other site 1051072004852 dimerization interface [polypeptide binding]; other site 1051072004853 LytTr DNA-binding domain; Region: LytTR; pfam04397 1051072004854 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1051072004855 TRAM domain; Region: TRAM; pfam01938 1051072004856 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1051072004857 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 1051072004858 S-adenosylmethionine binding site [chemical binding]; other site 1051072004859 recombination regulator RecX; Provisional; Region: recX; PRK14135 1051072004860 hypothetical protein; Provisional; Region: PRK13662 1051072004861 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 1051072004862 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072004863 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072004864 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 1051072004865 30S subunit binding site; other site 1051072004866 comF family protein; Region: comF; TIGR00201 1051072004867 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1051072004868 active site 1051072004869 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1051072004870 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 1051072004871 ATP binding site [chemical binding]; other site 1051072004872 putative Mg++ binding site [ion binding]; other site 1051072004873 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 1051072004874 nucleotide binding region [chemical binding]; other site 1051072004875 ATP-binding site [chemical binding]; other site 1051072004876 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1051072004877 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1051072004878 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1051072004879 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1051072004880 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 1051072004881 dimer interface [polypeptide binding]; other site 1051072004882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1051072004883 catalytic residue [active] 1051072004884 hypothetical protein; Provisional; Region: PRK07252 1051072004885 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 1051072004886 RNA binding site [nucleotide binding]; other site 1051072004887 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1051072004888 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 1051072004889 active site 1051072004890 motif I; other site 1051072004891 motif II; other site 1051072004892 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1051072004893 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 1051072004894 active site 1051072004895 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1051072004896 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 1051072004897 active site 1051072004898 phosphorylation site [posttranslational modification] 1051072004899 intermolecular recognition site; other site 1051072004900 dimerization interface [polypeptide binding]; other site 1051072004901 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 1051072004902 DNA binding residues [nucleotide binding] 1051072004903 dimerization interface [polypeptide binding]; other site 1051072004904 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1051072004905 Histidine kinase; Region: HisKA_3; pfam07730 1051072004906 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 1051072004907 ATP binding site [chemical binding]; other site 1051072004908 Mg2+ binding site [ion binding]; other site 1051072004909 G-X-G motif; other site 1051072004910 Predicted membrane protein [Function unknown]; Region: COG4758 1051072004911 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1051072004912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072004913 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072004914 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 1051072004915 active site 1051072004916 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1051072004917 NusB family; Region: NusB; pfam01029 1051072004918 putative RNA binding site [nucleotide binding]; other site 1051072004919 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 1051072004920 S-adenosylmethionine binding site [chemical binding]; other site 1051072004921 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1051072004922 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1051072004923 putative active site [active] 1051072004924 substrate binding site [chemical binding]; other site 1051072004925 putative cosubstrate binding site; other site 1051072004926 catalytic site [active] 1051072004927 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1051072004928 substrate binding site [chemical binding]; other site 1051072004929 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1051072004930 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 1051072004931 ATP binding site [chemical binding]; other site 1051072004932 putative Mg++ binding site [ion binding]; other site 1051072004933 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 1051072004934 ATP-binding site [chemical binding]; other site 1051072004935 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1051072004936 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1051072004937 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 1051072004938 catalytic site [active] 1051072004939 G-X2-G-X-G-K; other site 1051072004940 hypothetical protein; Provisional; Region: PRK00106 1051072004941 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1051072004942 Zn2+ binding site [ion binding]; other site 1051072004943 Mg2+ binding site [ion binding]; other site 1051072004944 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1051072004945 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1051072004946 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1051072004947 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 1051072004948 cell division protein GpsB; Provisional; Region: PRK14127 1051072004949 DivIVA domain; Region: DivI1A_domain; TIGR03544 1051072004950 hypothetical protein; Provisional; Region: PRK13660 1051072004951 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1051072004952 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1051072004953 Transglycosylase; Region: Transgly; pfam00912 1051072004954 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1051072004955 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 1051072004956 trimer interface [polypeptide binding]; other site 1051072004957 active site 1051072004958 G bulge; other site 1051072004959 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1051072004960 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 1051072004961 homodimer interface [polypeptide binding]; other site 1051072004962 NAD binding pocket [chemical binding]; other site 1051072004963 ATP binding pocket [chemical binding]; other site 1051072004964 Mg binding site [ion binding]; other site 1051072004965 active-site loop [active] 1051072004966 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1051072004967 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 1051072004968 active site 1051072004969 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1051072004970 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1051072004971 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1051072004972 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1051072004973 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 1051072004974 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1051072004975 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1051072004976 Walker A/P-loop; other site 1051072004977 ATP binding site [chemical binding]; other site 1051072004978 Q-loop/lid; other site 1051072004979 ABC transporter signature motif; other site 1051072004980 Walker B; other site 1051072004981 D-loop; other site 1051072004982 H-loop/switch region; other site 1051072004983 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 1051072004984 dimer interface [polypeptide binding]; other site 1051072004985 conserved gate region; other site 1051072004986 putative PBP binding loops; other site 1051072004987 ABC-ATPase subunit interface; other site 1051072004988 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1051072004989 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 1051072004990 substrate binding pocket [chemical binding]; other site 1051072004991 membrane-bound complex binding site; other site 1051072004992 hinge residues; other site 1051072004993 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 1051072004994 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1051072004995 ATP binding site [chemical binding]; other site 1051072004996 Mg++ binding site [ion binding]; other site 1051072004997 motif III; other site 1051072004998 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 1051072004999 nucleotide binding region [chemical binding]; other site 1051072005000 ATP-binding site [chemical binding]; other site 1051072005001 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1051072005002 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 1051072005003 Mg++ binding site [ion binding]; other site 1051072005004 putative catalytic motif [active] 1051072005005 putative substrate binding site [chemical binding]; other site 1051072005006 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1051072005007 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1051072005008 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1051072005009 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 1051072005010 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 1051072005011 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 1051072005012 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1051072005013 MraW methylase family; Region: Methyltransf_5; pfam01795 1051072005014 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1051072005015 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1051072005016 putative catalytic cysteine [active] 1051072005017 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 1051072005018 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 1051072005019 nucleotide binding site [chemical binding]; other site 1051072005020 homotetrameric interface [polypeptide binding]; other site 1051072005021 putative phosphate binding site [ion binding]; other site 1051072005022 putative allosteric binding site; other site 1051072005023 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1051072005024 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1051072005025 Walker A/P-loop; other site 1051072005026 ATP binding site [chemical binding]; other site 1051072005027 Q-loop/lid; other site 1051072005028 ABC transporter signature motif; other site 1051072005029 Walker B; other site 1051072005030 D-loop; other site 1051072005031 H-loop/switch region; other site 1051072005032 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1051072005033 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1051072005034 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1051072005035 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1051072005036 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 1051072005037 TPP-binding site [chemical binding]; other site 1051072005038 dimer interface [polypeptide binding]; other site 1051072005039 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 1051072005040 PYR/PP interface [polypeptide binding]; other site 1051072005041 dimer interface [polypeptide binding]; other site 1051072005042 TPP binding site [chemical binding]; other site 1051072005043 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1051072005044 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1051072005045 active site 1051072005046 intersubunit interactions; other site 1051072005047 catalytic residue [active] 1051072005048 glycerol kinase; Provisional; Region: glpK; PRK00047 1051072005049 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1051072005050 N- and C-terminal domain interface [polypeptide binding]; other site 1051072005051 active site 1051072005052 MgATP binding site [chemical binding]; other site 1051072005053 catalytic site [active] 1051072005054 metal binding site [ion binding]; metal-binding site 1051072005055 glycerol binding site [chemical binding]; other site 1051072005056 homotetramer interface [polypeptide binding]; other site 1051072005057 homodimer interface [polypeptide binding]; other site 1051072005058 FBP binding site [chemical binding]; other site 1051072005059 protein IIAGlc interface [polypeptide binding]; other site 1051072005060 Predicted membrane protein [Function unknown]; Region: COG3212 1051072005061 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1051072005062 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1051072005063 Predicted methyltransferases [General function prediction only]; Region: COG0313 1051072005064 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1051072005065 putative SAM binding site [chemical binding]; other site 1051072005066 putative homodimer interface [polypeptide binding]; other site 1051072005067 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 1051072005068 PSP1 C-terminal conserved region; Region: PSP1; cl00770 1051072005069 DNA polymerase III subunit delta'; Validated; Region: PRK07276 1051072005070 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1051072005071 thymidylate kinase; Validated; Region: tmk; PRK00698 1051072005072 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 1051072005073 TMP-binding site; other site 1051072005074 ATP-binding site [chemical binding]; other site 1051072005075 hypothetical protein; Provisional; Region: PRK02302 1051072005076 Protein of unknown function (DUF964); Region: DUF964; pfam06133 1051072005077 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1051072005078 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1051072005079 oligomer interface [polypeptide binding]; other site 1051072005080 active site residues [active] 1051072005081 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1051072005082 active site 1051072005083 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1051072005084 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1051072005085 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 1051072005086 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1051072005087 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1051072005088 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1051072005089 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1051072005090 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1051072005091 Walker A/P-loop; other site 1051072005092 ATP binding site [chemical binding]; other site 1051072005093 Q-loop/lid; other site 1051072005094 ABC transporter signature motif; other site 1051072005095 Walker B; other site 1051072005096 D-loop; other site 1051072005097 H-loop/switch region; other site 1051072005098 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1051072005099 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 1051072005100 putative ligand binding residues [chemical binding]; other site 1051072005101 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1051072005102 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 1051072005103 ABC-ATPase subunit interface; other site 1051072005104 dimer interface [polypeptide binding]; other site 1051072005105 putative PBP binding regions; other site 1051072005106 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1051072005107 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 1051072005108 ABC-ATPase subunit interface; other site 1051072005109 dimer interface [polypeptide binding]; other site 1051072005110 putative PBP binding regions; other site 1051072005111 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1051072005112 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1051072005113 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1051072005114 DHH family; Region: DHH; pfam01368 1051072005115 DHHA2 domain; Region: DHHA2; pfam02833 1051072005116 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1051072005117 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 1051072005118 FeS/SAM binding site; other site 1051072005119 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1051072005120 Domain of unknown function DUF21; Region: DUF21; pfam01595 1051072005121 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 1051072005122 Transporter associated domain; Region: CorC_HlyC; smart01091 1051072005123 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1051072005124 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 1051072005125 active site 1051072005126 ATP binding site [chemical binding]; other site 1051072005127 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1051072005128 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 1051072005129 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1051072005130 active site 1051072005131 Predicted membrane protein [Function unknown]; Region: COG3601 1051072005132 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1051072005133 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 1051072005134 nucleophilic elbow; other site 1051072005135 catalytic triad; other site 1051072005136 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1051072005137 hypothetical protein; Validated; Region: PRK00041 1051072005138 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1051072005139 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 1051072005140 RNA binding surface [nucleotide binding]; other site 1051072005141 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1051072005142 active site 1051072005143 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1051072005144 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1051072005145 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 1051072005146 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 1051072005147 DNA binding site [nucleotide binding] 1051072005148 active site 1051072005149 Int/Topo IB signature motif; other site 1051072005150 catalytic residues [active] 1051072005151 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 1051072005152 FOG: CBS domain [General function prediction only]; Region: COG0517 1051072005153 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1051072005154 active site 1051072005155 metal binding site [ion binding]; metal-binding site 1051072005156 homotetramer interface [polypeptide binding]; other site 1051072005157 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 1051072005158 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 1051072005159 active site 1051072005160 dimerization interface [polypeptide binding]; other site 1051072005161 glutamate racemase; Provisional; Region: PRK00865 1051072005162 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 1051072005163 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1051072005164 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1051072005165 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1051072005166 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1051072005167 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1051072005168 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1051072005169 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1051072005170 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1051072005171 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1051072005172 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1051072005173 acylphosphatase; Provisional; Region: PRK14434 1051072005174 OxaA-like protein precursor; Provisional; Region: PRK02463 1051072005175 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1051072005176 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1051072005177 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1051072005178 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1051072005179 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1051072005180 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1051072005181 dimerization interface [polypeptide binding]; other site 1051072005182 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1051072005183 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1051072005184 Coenzyme A binding pocket [chemical binding]; other site 1051072005185 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1051072005186 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1051072005187 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1051072005188 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1051072005189 SWIM zinc finger; Region: SWIM; pfam04434 1051072005190 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1051072005191 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1051072005192 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 1051072005193 ATP binding site [chemical binding]; other site 1051072005194 putative Mg++ binding site [ion binding]; other site 1051072005195 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 1051072005196 nucleotide binding region [chemical binding]; other site 1051072005197 ATP-binding site [chemical binding]; other site 1051072005198 GTP-binding protein Der; Reviewed; Region: PRK00093 1051072005199 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1051072005200 G1 box; other site 1051072005201 GTP/Mg2+ binding site [chemical binding]; other site 1051072005202 Switch I region; other site 1051072005203 G2 box; other site 1051072005204 Switch II region; other site 1051072005205 G3 box; other site 1051072005206 G4 box; other site 1051072005207 G5 box; other site 1051072005208 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1051072005209 G1 box; other site 1051072005210 GTP/Mg2+ binding site [chemical binding]; other site 1051072005211 Switch I region; other site 1051072005212 G2 box; other site 1051072005213 G3 box; other site 1051072005214 Switch II region; other site 1051072005215 G4 box; other site 1051072005216 G5 box; other site 1051072005217 primosomal protein DnaI; Reviewed; Region: PRK08939 1051072005218 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1051072005219 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 1051072005220 Walker A motif; other site 1051072005221 ATP binding site [chemical binding]; other site 1051072005222 Walker B motif; other site 1051072005223 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1051072005224 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1051072005225 ATP cone domain; Region: ATP-cone; pfam03477 1051072005226 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1051072005227 HAMP domain; Region: HAMP; pfam00672 1051072005228 dimerization interface [polypeptide binding]; other site 1051072005229 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 1051072005230 dimer interface [polypeptide binding]; other site 1051072005231 phosphorylation site [posttranslational modification] 1051072005232 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 1051072005233 ATP binding site [chemical binding]; other site 1051072005234 Mg2+ binding site [ion binding]; other site 1051072005235 G-X-G motif; other site 1051072005236 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1051072005237 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 1051072005238 active site 1051072005239 phosphorylation site [posttranslational modification] 1051072005240 intermolecular recognition site; other site 1051072005241 dimerization interface [polypeptide binding]; other site 1051072005242 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 1051072005243 DNA binding site [nucleotide binding] 1051072005244 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1051072005245 heat shock protein HtpX; Provisional; Region: PRK04897 1051072005246 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1051072005247 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1051072005248 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 1051072005249 S-adenosylmethionine binding site [chemical binding]; other site 1051072005250 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1051072005251 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1051072005252 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1051072005253 TrkA-N domain; Region: TrkA_N; pfam02254 1051072005254 serine/threonine transporter SstT; Provisional; Region: PRK13628 1051072005255 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1051072005256 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1051072005257 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 1051072005258 conserved gate region; other site 1051072005259 ABC-ATPase subunit interface; other site 1051072005260 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1051072005261 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1051072005262 Walker A/P-loop; other site 1051072005263 ATP binding site [chemical binding]; other site 1051072005264 Q-loop/lid; other site 1051072005265 ABC transporter signature motif; other site 1051072005266 Walker B; other site 1051072005267 D-loop; other site 1051072005268 H-loop/switch region; other site 1051072005269 NIL domain; Region: NIL; pfam09383 1051072005270 hypothetical protein; Provisional; Region: PRK06446 1051072005271 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 1051072005272 metal binding site [ion binding]; metal-binding site 1051072005273 dimer interface [polypeptide binding]; other site 1051072005274 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1051072005275 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1051072005276 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1051072005277 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 1051072005278 substrate binding pocket [chemical binding]; other site 1051072005279 membrane-bound complex binding site; other site 1051072005280 hinge residues; other site 1051072005281 hypothetical protein; Provisional; Region: PRK12378 1051072005282 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1051072005283 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1051072005284 DNA binding residues [nucleotide binding] 1051072005285 dimer interface [polypeptide binding]; other site 1051072005286 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1051072005287 hypothetical protein; Provisional; Region: PRK13670 1051072005288 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1051072005289 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1051072005290 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 1051072005291 S-adenosylmethionine binding site [chemical binding]; other site 1051072005292 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1051072005293 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1051072005294 Zn2+ binding site [ion binding]; other site 1051072005295 Mg2+ binding site [ion binding]; other site 1051072005296 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1051072005297 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1051072005298 active site 1051072005299 (T/H)XGH motif; other site 1051072005300 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1051072005301 GTPase YqeH; Provisional; Region: PRK13796 1051072005302 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1051072005303 GTP/Mg2+ binding site [chemical binding]; other site 1051072005304 G4 box; other site 1051072005305 G5 box; other site 1051072005306 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1051072005307 G1 box; other site 1051072005308 G1 box; other site 1051072005309 GTP/Mg2+ binding site [chemical binding]; other site 1051072005310 G2 box; other site 1051072005311 Switch I region; other site 1051072005312 G2 box; other site 1051072005313 Switch I region; other site 1051072005314 G3 box; other site 1051072005315 G3 box; other site 1051072005316 Switch II region; other site 1051072005317 Switch II region; other site 1051072005318 G4 box; other site 1051072005319 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1051072005320 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 1051072005321 active site 1051072005322 motif I; other site 1051072005323 motif II; other site 1051072005324 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072005325 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072005326 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1051072005327 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1051072005328 Walker A/P-loop; other site 1051072005329 ATP binding site [chemical binding]; other site 1051072005330 Q-loop/lid; other site 1051072005331 ABC transporter signature motif; other site 1051072005332 Walker B; other site 1051072005333 D-loop; other site 1051072005334 H-loop/switch region; other site 1051072005335 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1051072005336 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1051072005337 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1051072005338 Walker A/P-loop; other site 1051072005339 ATP binding site [chemical binding]; other site 1051072005340 Q-loop/lid; other site 1051072005341 ABC transporter signature motif; other site 1051072005342 Walker B; other site 1051072005343 D-loop; other site 1051072005344 H-loop/switch region; other site 1051072005345 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1051072005346 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1051072005347 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 1051072005348 dimer interface [polypeptide binding]; other site 1051072005349 conserved gate region; other site 1051072005350 putative PBP binding loops; other site 1051072005351 ABC-ATPase subunit interface; other site 1051072005352 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1051072005353 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 1051072005354 dimer interface [polypeptide binding]; other site 1051072005355 conserved gate region; other site 1051072005356 putative PBP binding loops; other site 1051072005357 ABC-ATPase subunit interface; other site 1051072005358 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1051072005359 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1051072005360 peptide binding site [polypeptide binding]; other site 1051072005361 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1051072005362 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1051072005363 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1051072005364 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1051072005365 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1051072005366 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1051072005367 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1051072005368 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1051072005369 FeS assembly protein SufB; Region: sufB; TIGR01980 1051072005370 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1051072005371 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1051072005372 trimerization site [polypeptide binding]; other site 1051072005373 active site 1051072005374 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1051072005375 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 1051072005376 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1051072005377 catalytic residue [active] 1051072005378 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1051072005379 FeS assembly protein SufD; Region: sufD; TIGR01981 1051072005380 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1051072005381 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1051072005382 Walker A/P-loop; other site 1051072005383 ATP binding site [chemical binding]; other site 1051072005384 Q-loop/lid; other site 1051072005385 ABC transporter signature motif; other site 1051072005386 Walker B; other site 1051072005387 D-loop; other site 1051072005388 H-loop/switch region; other site 1051072005389 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1051072005390 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 1051072005391 Mg++ binding site [ion binding]; other site 1051072005392 putative catalytic motif [active] 1051072005393 substrate binding site [chemical binding]; other site 1051072005394 adaptor protein; Provisional; Region: PRK02315 1051072005395 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1051072005396 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 1051072005397 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1051072005398 substrate binding pocket [chemical binding]; other site 1051072005399 membrane-bound complex binding site; other site 1051072005400 hinge residues; other site 1051072005401 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 1051072005402 dimer interface [polypeptide binding]; other site 1051072005403 conserved gate region; other site 1051072005404 putative PBP binding loops; other site 1051072005405 ABC-ATPase subunit interface; other site 1051072005406 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1051072005407 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072005408 Walker A/P-loop; other site 1051072005409 ATP binding site [chemical binding]; other site 1051072005410 Q-loop/lid; other site 1051072005411 ABC transporter signature motif; other site 1051072005412 Walker B; other site 1051072005413 D-loop; other site 1051072005414 H-loop/switch region; other site 1051072005415 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1051072005416 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 1051072005417 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1051072005418 DAK2 domain; Region: Dak2; pfam02734 1051072005419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1051072005420 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 1051072005421 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1051072005422 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1051072005423 ParB-like nuclease domain; Region: ParBc; pfam02195 1051072005424 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1051072005425 DNA methylase; Region: N6_N4_Mtase; pfam01555 1051072005426 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1051072005427 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1051072005428 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1051072005429 Toprim-like; Region: Toprim_2; pfam13155 1051072005430 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1051072005431 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 1051072005432 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1051072005433 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 1051072005434 Peptidase family M23; Region: Peptidase_M23; pfam01551 1051072005435 CHAP domain; Region: CHAP; pfam05257 1051072005436 AAA-like domain; Region: AAA_10; pfam12846 1051072005437 adhesin isopeptide-forming domain, sspB-C2 type; Region: isopep_sspB_C2; TIGR04228 1051072005438 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1051072005439 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 1051072005440 putative active site [active] 1051072005441 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1051072005442 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 1051072005443 dimer interface [polypeptide binding]; other site 1051072005444 ssDNA binding site [nucleotide binding]; other site 1051072005445 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1051072005446 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1051072005447 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1051072005448 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 1051072005449 intersubunit interface [polypeptide binding]; other site 1051072005450 active site 1051072005451 zinc binding site [ion binding]; other site 1051072005452 Na+ binding site [ion binding]; other site 1051072005453 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1051072005454 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1051072005455 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1051072005456 CTP synthetase; Validated; Region: pyrG; PRK05380 1051072005457 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 1051072005458 Catalytic site [active] 1051072005459 active site 1051072005460 UTP binding site [chemical binding]; other site 1051072005461 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1051072005462 active site 1051072005463 putative oxyanion hole; other site 1051072005464 catalytic triad [active] 1051072005465 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1051072005466 trigger factor; Provisional; Region: tig; PRK01490 1051072005467 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1051072005468 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1051072005469 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 1051072005470 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1051072005471 active site 1051072005472 Ca binding site [ion binding]; other site 1051072005473 catalytic site [active] 1051072005474 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1051072005475 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1051072005476 hypothetical protein; Provisional; Region: PRK13690 1051072005477 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 1051072005478 dimer interface [polypeptide binding]; other site 1051072005479 substrate binding site [chemical binding]; other site 1051072005480 ATP binding site [chemical binding]; other site 1051072005481 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1051072005482 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1051072005483 dimerization interface 3.5A [polypeptide binding]; other site 1051072005484 active site 1051072005485 aspartate kinase; Reviewed; Region: PRK09034 1051072005486 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 1051072005487 putative catalytic residues [active] 1051072005488 putative nucleotide binding site [chemical binding]; other site 1051072005489 putative aspartate binding site [chemical binding]; other site 1051072005490 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 1051072005491 allosteric regulatory residue; other site 1051072005492 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 1051072005493 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072005494 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072005495 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 1051072005496 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1051072005497 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1051072005498 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 1051072005499 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1051072005500 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1051072005501 intersubunit interface [polypeptide binding]; other site 1051072005502 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1051072005503 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1051072005504 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 1051072005505 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1051072005506 DNA binding site [nucleotide binding] 1051072005507 domain linker motif; other site 1051072005508 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1051072005509 putative dimerization interface [polypeptide binding]; other site 1051072005510 putative ligand binding site [chemical binding]; other site 1051072005511 galactokinase; Provisional; Region: PRK05322 1051072005512 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1051072005513 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1051072005514 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1051072005515 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1051072005516 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1051072005517 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1051072005518 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1051072005519 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1051072005520 NAD binding site [chemical binding]; other site 1051072005521 homodimer interface [polypeptide binding]; other site 1051072005522 active site 1051072005523 substrate binding site [chemical binding]; other site 1051072005524 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1051072005525 active site 1051072005526 catalytic residues [active] 1051072005527 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072005528 TIR domain; Region: TIR_2; pfam13676 1051072005529 ScaI restriction endonuclease; Region: RE_ScaI; pfam09569 1051072005530 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 1051072005531 non-specific DNA binding site [nucleotide binding]; other site 1051072005532 salt bridge; other site 1051072005533 sequence-specific DNA binding site [nucleotide binding]; other site 1051072005534 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1051072005535 DNA methylase; Region: N6_N4_Mtase; pfam01555 1051072005536 Plasmid replication protein; Region: Rep_2; pfam01719 1051072005537 RNA helicase; Region: RNA_helicase; pfam00910 1051072005538 Helix-turn-helix domain; Region: HTH_17; pfam12728 1051072005539 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 1051072005540 DNA binding site [nucleotide binding] 1051072005541 Int/Topo IB signature motif; other site 1051072005542 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1051072005543 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 1051072005544 23S rRNA interface [nucleotide binding]; other site 1051072005545 L3 interface [polypeptide binding]; other site 1051072005546 EDD domain protein, DegV family; Region: DegV; TIGR00762 1051072005547 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1051072005548 YacP-like NYN domain; Region: NYN_YacP; cl01491 1051072005549 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1051072005550 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1051072005551 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1051072005552 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 1051072005553 active site 1051072005554 metal binding site [ion binding]; metal-binding site 1051072005555 dimerization interface [polypeptide binding]; other site 1051072005556 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1051072005557 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1051072005558 active site 1051072005559 HIGH motif; other site 1051072005560 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1051072005561 KMSKS motif; other site 1051072005562 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1051072005563 tRNA binding surface [nucleotide binding]; other site 1051072005564 anticodon binding site; other site 1051072005565 serine O-acetyltransferase; Region: cysE; TIGR01172 1051072005566 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 1051072005567 trimer interface [polypeptide binding]; other site 1051072005568 active site 1051072005569 substrate binding site [chemical binding]; other site 1051072005570 CoA binding site [chemical binding]; other site 1051072005571 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1051072005572 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1051072005573 RNase E interface [polypeptide binding]; other site 1051072005574 trimer interface [polypeptide binding]; other site 1051072005575 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1051072005576 RNase E interface [polypeptide binding]; other site 1051072005577 trimer interface [polypeptide binding]; other site 1051072005578 active site 1051072005579 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 1051072005580 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 1051072005581 RNA binding site [nucleotide binding]; other site 1051072005582 putative transposase OrfB; Reviewed; Region: PHA02517 1051072005583 HTH-like domain; Region: HTH_21; pfam13276 1051072005584 Integrase core domain; Region: rve; pfam00665 1051072005585 Integrase core domain; Region: rve_2; pfam13333 1051072005586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1051072005587 Transposase; Region: HTH_Tnp_1; cl17663 1051072005588 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 1051072005589 16S/18S rRNA binding site [nucleotide binding]; other site 1051072005590 S13e-L30e interaction site [polypeptide binding]; other site 1051072005591 25S rRNA binding site [nucleotide binding]; other site 1051072005592 TQXA domain; Region: TQXA_dom; TIGR03934 1051072005593 Fibronectin binding repeat; Region: Fn_bind; pfam02986 1051072005594 Fibronectin binding repeat; Region: Fn_bind; pfam02986 1051072005595 Fibronectin binding repeat; Region: Fn_bind; pfam02986 1051072005596 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 1051072005597 active site 1051072005598 catalytic residues [active] 1051072005599 metal binding site [ion binding]; metal-binding site 1051072005600 Predicted flavoprotein [General function prediction only]; Region: COG0431 1051072005601 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1051072005602 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1051072005603 MarR family; Region: MarR; pfam01047 1051072005604 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1051072005605 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1051072005606 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 1051072005607 generic binding surface II; other site 1051072005608 generic binding surface I; other site 1051072005609 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1051072005610 active site 1051072005611 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1051072005612 active site 1051072005613 catalytic site [active] 1051072005614 substrate binding site [chemical binding]; other site 1051072005615 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1051072005616 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1051072005617 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1051072005618 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 1051072005619 motif 1; other site 1051072005620 dimer interface [polypeptide binding]; other site 1051072005621 active site 1051072005622 motif 2; other site 1051072005623 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 1051072005624 putative deacylase active site [active] 1051072005625 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 1051072005626 active site 1051072005627 motif 3; other site 1051072005628 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 1051072005629 anticodon binding site; other site 1051072005630 RIP metalloprotease RseP; Region: TIGR00054 1051072005631 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 1051072005632 active site 1051072005633 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 1051072005634 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 1051072005635 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 1051072005636 putative substrate binding region [chemical binding]; other site 1051072005637 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1051072005638 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1051072005639 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1051072005640 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1051072005641 catalytic residue [active] 1051072005642 putative FPP diphosphate binding site; other site 1051072005643 putative FPP binding hydrophobic cleft; other site 1051072005644 dimer interface [polypeptide binding]; other site 1051072005645 putative IPP diphosphate binding site; other site 1051072005646 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 1051072005647 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 1051072005648 catalytic residues [active] 1051072005649 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 1051072005650 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1051072005651 Ca binding site [ion binding]; other site 1051072005652 active site 1051072005653 catalytic site [active] 1051072005654 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1051072005655 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1051072005656 Walker A/P-loop; other site 1051072005657 ATP binding site [chemical binding]; other site 1051072005658 Q-loop/lid; other site 1051072005659 ABC transporter signature motif; other site 1051072005660 Walker B; other site 1051072005661 D-loop; other site 1051072005662 H-loop/switch region; other site 1051072005663 TOBE domain; Region: TOBE; pfam03459 1051072005664 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 1051072005665 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 1051072005666 putative active site [active] 1051072005667 dimerization interface [polypeptide binding]; other site 1051072005668 putative tRNAtyr binding site [nucleotide binding]; other site 1051072005669 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1051072005670 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1051072005671 Zn2+ binding site [ion binding]; other site 1051072005672 Mg2+ binding site [ion binding]; other site 1051072005673 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1051072005674 synthetase active site [active] 1051072005675 NTP binding site [chemical binding]; other site 1051072005676 metal binding site [ion binding]; metal-binding site 1051072005677 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 1051072005678 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1051072005679 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1051072005680 YSIRK-targeted surface antigen transcriptional regulator; Region: adjacent_YSIRK; TIGR04094 1051072005681 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1051072005682 flavoprotein NrdI; Provisional; Region: PRK02551 1051072005683 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 1051072005684 putative catalytic site [active] 1051072005685 putative metal binding site [ion binding]; other site 1051072005686 putative phosphate binding site [ion binding]; other site 1051072005687 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 1051072005688 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1051072005689 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 1051072005690 active site turn [active] 1051072005691 phosphorylation site [posttranslational modification] 1051072005692 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1051072005693 HPr interaction site; other site 1051072005694 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1051072005695 active site 1051072005696 phosphorylation site [posttranslational modification] 1051072005697 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1051072005698 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1051072005699 DNA binding site [nucleotide binding] 1051072005700 domain linker motif; other site 1051072005701 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1051072005702 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 1051072005703 dimerization interface [polypeptide binding]; other site 1051072005704 putative DNA binding site [nucleotide binding]; other site 1051072005705 putative Zn2+ binding site [ion binding]; other site 1051072005706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1051072005707 RNA methyltransferase, RsmE family; Region: TIGR00046 1051072005708 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1051072005709 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 1051072005710 S-adenosylmethionine binding site [chemical binding]; other site 1051072005711 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1051072005712 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_23; cd04682 1051072005713 nudix motif; other site 1051072005714 ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. 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_PF0470_like; cd06555 1051072005715 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 1051072005716 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1051072005717 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1051072005718 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1051072005719 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 1051072005720 substrate-cofactor binding pocket; other site 1051072005721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1051072005722 catalytic residue [active] 1051072005723 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1051072005724 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1051072005725 glutamine binding [chemical binding]; other site 1051072005726 catalytic triad [active] 1051072005727 recombination factor protein RarA; Reviewed; Region: PRK13342 1051072005728 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 1051072005729 Walker A motif; other site 1051072005730 ATP binding site [chemical binding]; other site 1051072005731 Walker B motif; other site 1051072005732 arginine finger; other site 1051072005733 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1051072005734 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1051072005735 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 1051072005736 non-specific DNA binding site [nucleotide binding]; other site 1051072005737 salt bridge; other site 1051072005738 sequence-specific DNA binding site [nucleotide binding]; other site 1051072005739 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 1051072005740 non-specific DNA binding site [nucleotide binding]; other site 1051072005741 salt bridge; other site 1051072005742 sequence-specific DNA binding site [nucleotide binding]; other site 1051072005743 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1051072005744 H+ Antiporter protein; Region: 2A0121; TIGR00900 1051072005745 topology modulation protein; Provisional; Region: PRK07261 1051072005746 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1051072005747 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1051072005748 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1051072005749 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1051072005750 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1051072005751 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1051072005752 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 1051072005753 catalytic core [active] 1051072005754 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1051072005755 putative dimer interface [polypeptide binding]; other site 1051072005756 catalytic triad [active] 1051072005757 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1051072005758 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1051072005759 dimer interface [polypeptide binding]; other site 1051072005760 active site 1051072005761 metal binding site [ion binding]; metal-binding site 1051072005762 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1051072005763 active site 1051072005764 intersubunit interactions; other site 1051072005765 catalytic residue [active] 1051072005766 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 1051072005767 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1051072005768 dimer interface [polypeptide binding]; other site 1051072005769 active site 1051072005770 glycine loop; other site 1051072005771 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1051072005772 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1051072005773 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 1051072005774 active site 1051072005775 P-loop; other site 1051072005776 phosphorylation site [posttranslational modification] 1051072005777 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 1051072005778 active site 1051072005779 methionine cluster; other site 1051072005780 phosphorylation site [posttranslational modification] 1051072005781 metal binding site [ion binding]; metal-binding site 1051072005782 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1051072005783 Homeodomain-like domain; Region: HTH_23; pfam13384 1051072005784 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1051072005785 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1051072005786 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1051072005787 DNA-binding site [nucleotide binding]; DNA binding site 1051072005788 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1051072005789 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1051072005790 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1051072005791 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 1051072005792 GDP-binding site [chemical binding]; other site 1051072005793 ACT binding site; other site 1051072005794 IMP binding site; other site 1051072005795 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 1051072005796 Cna protein B-type domain; Region: Cna_B; pfam05738 1051072005797 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 1051072005798 Cna protein B-type domain; Region: Cna_B; pfam05738 1051072005799 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 1051072005800 active site 1051072005801 catalytic site [active] 1051072005802 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 1051072005803 active site 1051072005804 catalytic site [active] 1051072005805 Cna protein B-type domain; Region: Cna_B; pfam05738 1051072005806 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1051072005807 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1051072005808 YSIRK-targeted surface antigen transcriptional regulator; Region: adjacent_YSIRK; TIGR04094 1051072005809 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1051072005810 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 1051072005811 dimerization interface [polypeptide binding]; other site 1051072005812 domain crossover interface; other site 1051072005813 redox-dependent activation switch; other site 1051072005814 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1051072005815 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 1051072005816 FMN binding site [chemical binding]; other site 1051072005817 active site 1051072005818 catalytic residues [active] 1051072005819 substrate binding site [chemical binding]; other site 1051072005820 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1051072005821 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 1051072005822 Substrate-binding site [chemical binding]; other site 1051072005823 Substrate specificity [chemical binding]; other site 1051072005824 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1051072005825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072005826 Walker A/P-loop; other site 1051072005827 ATP binding site [chemical binding]; other site 1051072005828 Q-loop/lid; other site 1051072005829 ABC transporter signature motif; other site 1051072005830 Walker B; other site 1051072005831 D-loop; other site 1051072005832 H-loop/switch region; other site 1051072005833 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; cd06574 1051072005834 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1051072005835 TM-ABC transporter signature motif; other site 1051072005836 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1051072005837 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1051072005838 zinc binding site [ion binding]; other site 1051072005839 putative ligand binding site [chemical binding]; other site 1051072005840 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1051072005841 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1051072005842 zinc binding site [ion binding]; other site 1051072005843 putative ligand binding site [chemical binding]; other site 1051072005844 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1051072005845 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 1051072005846 dimer interface [polypeptide binding]; other site 1051072005847 ssDNA binding site [nucleotide binding]; other site 1051072005848 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1051072005849 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 1051072005850 S-adenosylmethionine binding site [chemical binding]; other site 1051072005851 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 1051072005852 putative tRNA-binding site [nucleotide binding]; other site 1051072005853 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 1051072005854 catalytic residues [active] 1051072005855 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1051072005856 glutamyl aminopeptidase; Region: glu_aminopep; TIGR03107 1051072005857 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1051072005858 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1051072005859 CAAX protease self-immunity; Region: Abi; pfam02517 1051072005860 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 1051072005861 non-specific DNA binding site [nucleotide binding]; other site 1051072005862 salt bridge; other site 1051072005863 sequence-specific DNA binding site [nucleotide binding]; other site 1051072005864 hypothetical protein; Validated; Region: PRK02101 1051072005865 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1051072005866 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 1051072005867 FeS/SAM binding site; other site 1051072005868 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1051072005869 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1051072005870 Coenzyme A binding pocket [chemical binding]; other site 1051072005871 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1051072005872 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1051072005873 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1051072005874 ATP cone domain; Region: ATP-cone; pfam03477 1051072005875 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1051072005876 effector binding site; other site 1051072005877 active site 1051072005878 Zn binding site [ion binding]; other site 1051072005879 glycine loop; other site 1051072005880 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 1051072005881 hypothetical protein; Provisional; Region: PRK13678 1051072005882 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1051072005883 hypothetical protein; Provisional; Region: PRK05473 1051072005884 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 1051072005885 ArsC family; Region: ArsC; pfam03960 1051072005886 putative catalytic residues [active] 1051072005887 thiol/disulfide switch; other site 1051072005888 recombinase A; Provisional; Region: recA; PRK09354 1051072005889 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 1051072005890 hexamer interface [polypeptide binding]; other site 1051072005891 Walker A motif; other site 1051072005892 ATP binding site [chemical binding]; other site 1051072005893 Walker B motif; other site 1051072005894 competence damage-inducible protein A; Provisional; Region: PRK00549 1051072005895 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1051072005896 putative MPT binding site; other site 1051072005897 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1051072005898 PLA2_like: Phospholipase A2, a super-family of secretory and cytosolic enzymes; the latter are either Ca dependent or Ca independent. PLA2 cleaves the sn-2 position of the glycerol backbone of phospholipids (PC or phosphatidylethanolamine), usually in a...; Region: PLA2_like; cl05417 1051072005899 primary metal binding site; other site 1051072005900 catalytic residues [active] 1051072005901 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1051072005902 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 1051072005903 non-specific DNA binding site [nucleotide binding]; other site 1051072005904 salt bridge; other site 1051072005905 sequence-specific DNA binding site [nucleotide binding]; other site 1051072005906 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1051072005907 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1051072005908 RuvA N terminal domain; Region: RuvA_N; pfam01330 1051072005909 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1051072005910 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 1051072005911 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1051072005912 putative substrate translocation pore; other site 1051072005913 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1051072005914 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 1051072005915 ATP binding site [chemical binding]; other site 1051072005916 Mg2+ binding site [ion binding]; other site 1051072005917 G-X-G motif; other site 1051072005918 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 1051072005919 ATP binding site [chemical binding]; other site 1051072005920 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1051072005921 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1051072005922 MutS domain I; Region: MutS_I; pfam01624 1051072005923 MutS domain II; Region: MutS_II; pfam05188 1051072005924 MutS domain III; Region: MutS_III; pfam05192 1051072005925 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1051072005926 Walker A/P-loop; other site 1051072005927 ATP binding site [chemical binding]; other site 1051072005928 Q-loop/lid; other site 1051072005929 ABC transporter signature motif; other site 1051072005930 Walker B; other site 1051072005931 D-loop; other site 1051072005932 H-loop/switch region; other site 1051072005933 Protein of unknown function (DUF964); Region: DUF964; cl01483 1051072005934 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1051072005935 arginine repressor; Region: argR_whole; TIGR01529 1051072005936 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1051072005937 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1051072005938 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1051072005939 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1051072005940 active site 1051072005941 HIGH motif; other site 1051072005942 KMSK motif region; other site 1051072005943 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1051072005944 tRNA binding surface [nucleotide binding]; other site 1051072005945 anticodon binding site; other site 1051072005946 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1051072005947 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072005948 ABC transporter; Region: ABC_tran_2; pfam12848 1051072005949 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 1051072005950 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072005951 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1051072005952 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1051072005953 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1051072005954 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1051072005955 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1051072005956 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1051072005957 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1051072005958 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1051072005959 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1051072005960 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1051072005961 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1051072005962 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1051072005963 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1051072005964 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 1051072005965 dimer interface [polypeptide binding]; other site 1051072005966 anticodon binding site; other site 1051072005967 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 1051072005968 homodimer interface [polypeptide binding]; other site 1051072005969 motif 1; other site 1051072005970 active site 1051072005971 motif 2; other site 1051072005972 GAD domain; Region: GAD; pfam02938 1051072005973 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 1051072005974 motif 3; other site 1051072005975 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1051072005976 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 1051072005977 dimer interface [polypeptide binding]; other site 1051072005978 motif 1; other site 1051072005979 active site 1051072005980 motif 2; other site 1051072005981 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 1051072005982 anticodon binding site; other site 1051072005983 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1051072005984 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1051072005985 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1051072005986 metal binding triad [ion binding]; metal-binding site 1051072005987 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1051072005988 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1051072005989 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1051072005990 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1051072005991 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 1051072005992 active site 1051072005993 phosphorylation site [posttranslational modification] 1051072005994 intermolecular recognition site; other site 1051072005995 dimerization interface [polypeptide binding]; other site 1051072005996 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 1051072005997 DNA binding residues [nucleotide binding] 1051072005998 dimerization interface [polypeptide binding]; other site 1051072005999 Pseudomonas avirulence D protein (AvrD); Region: AvrD; pfam05655 1051072006000 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1051072006001 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1051072006002 Walker A/P-loop; other site 1051072006003 ATP binding site [chemical binding]; other site 1051072006004 Q-loop/lid; other site 1051072006005 ABC transporter signature motif; other site 1051072006006 Walker B; other site 1051072006007 D-loop; other site 1051072006008 H-loop/switch region; other site 1051072006009 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1051072006010 FtsX-like permease family; Region: FtsX; pfam02687 1051072006011 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1051072006012 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1051072006013 FtsX-like permease family; Region: FtsX; pfam02687 1051072006014 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1051072006015 Predicted membrane protein [Function unknown]; Region: COG2035 1051072006016 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1051072006017 nudix motif; other site 1051072006018 putative active site [active] 1051072006019 metal binding site [ion binding]; metal-binding site 1051072006020 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1051072006021 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1051072006022 Helix-turn-helix domain; Region: HTH_28; pfam13518 1051072006023 putative transposase OrfB; Reviewed; Region: PHA02517 1051072006024 HTH-like domain; Region: HTH_21; pfam13276 1051072006025 Integrase core domain; Region: rve; pfam00665 1051072006026 Integrase core domain; Region: rve_2; pfam13333 1051072006027 Predicted transcriptional regulators [Transcription]; Region: COG1695 1051072006028 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1051072006029 Predicted membrane protein [Function unknown]; Region: COG4709 1051072006030 Predicted membrane protein [Function unknown]; Region: COG4709 1051072006031 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1051072006032 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1051072006033 Predicted membrane protein [Function unknown]; Region: COG1511 1051072006034 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1051072006035 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1051072006036 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1051072006037 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1051072006038 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1051072006039 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1051072006040 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 1051072006041 RNA binding surface [nucleotide binding]; other site 1051072006042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 1051072006043 replicative DNA helicase; Provisional; Region: PRK05748 1051072006044 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1051072006045 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 1051072006046 Walker A motif; other site 1051072006047 ATP binding site [chemical binding]; other site 1051072006048 Walker B motif; other site 1051072006049 DNA binding loops [nucleotide binding] 1051072006050 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1051072006051 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1051072006052 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1051072006053 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1051072006054 DHH family; Region: DHH; pfam01368 1051072006055 DHHA1 domain; Region: DHHA1; pfam02272 1051072006056 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1051072006057 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1051072006058 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1051072006059 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 1051072006060 nudix motif; other site 1051072006061 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1051072006062 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 1051072006063 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1051072006064 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1051072006065 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1051072006066 putative L-serine binding site [chemical binding]; other site 1051072006067 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1051072006068 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1051072006069 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1051072006070 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 1051072006071 motif II; other site 1051072006072 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1051072006073 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 1051072006074 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1051072006075 Walker A/P-loop; other site 1051072006076 ATP binding site [chemical binding]; other site 1051072006077 Q-loop/lid; other site 1051072006078 ABC transporter signature motif; other site 1051072006079 Walker B; other site 1051072006080 D-loop; other site 1051072006081 H-loop/switch region; other site 1051072006082 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 1051072006083 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1051072006084 Walker A/P-loop; other site 1051072006085 ATP binding site [chemical binding]; other site 1051072006086 Q-loop/lid; other site 1051072006087 ABC transporter signature motif; other site 1051072006088 Walker B; other site 1051072006089 D-loop; other site 1051072006090 H-loop/switch region; other site 1051072006091 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1051072006092 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1051072006093 Helix-turn-helix domain; Region: HTH_25; pfam13413 1051072006094 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1051072006095 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1051072006096 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1051072006097 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1051072006098 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1051072006099 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 1051072006100 RNA binding surface [nucleotide binding]; other site 1051072006101 recombination protein F; Reviewed; Region: recF; PRK00064 1051072006102 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1051072006103 Walker A/P-loop; other site 1051072006104 ATP binding site [chemical binding]; other site 1051072006105 Q-loop/lid; other site 1051072006106 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1051072006107 ABC transporter signature motif; other site 1051072006108 Walker B; other site 1051072006109 D-loop; other site 1051072006110 H-loop/switch region; other site 1051072006111 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1051072006112 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 1051072006113 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 1051072006114 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1051072006115 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 1051072006116 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 1051072006117 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 1051072006118 active site 1051072006119 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1051072006120 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1051072006121 active site 1051072006122 HIGH motif; other site 1051072006123 dimer interface [polypeptide binding]; other site 1051072006124 KMSKS motif; other site 1051072006125 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1051072006126 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1051072006127 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1051072006128 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1051072006129 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1051072006130 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072006131 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072006132 ABC transporter; Region: ABC_tran_2; pfam12848 1051072006133 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1051072006134 Predicted membrane protein [Function unknown]; Region: COG4485 1051072006135 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1051072006136 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 1051072006137 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1051072006138 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 1051072006139 protein binding site [polypeptide binding]; other site 1051072006140 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1051072006141 ParB-like nuclease domain; Region: ParBc; pfam02195 1051072006142 KorB domain; Region: KorB; pfam08535