-- dump date 20140619_112935 -- class Genbank::misc_feature -- table misc_feature_note -- id note 693745000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 693745000002 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 693745000003 Walker A motif; other site 693745000004 ATP binding site [chemical binding]; other site 693745000005 Walker B motif; other site 693745000006 arginine finger; other site 693745000007 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 693745000008 DnaA box-binding interface [nucleotide binding]; other site 693745000009 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 693745000010 active site 693745000011 putative catalytic site [active] 693745000012 DNA binding site [nucleotide binding] 693745000013 putative phosphate binding site [ion binding]; other site 693745000014 metal binding site A [ion binding]; metal-binding site 693745000015 AP binding site [nucleotide binding]; other site 693745000016 metal binding site B [ion binding]; metal-binding site 693745000017 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745000018 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 693745000019 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 693745000020 ssDNA binding site; other site 693745000021 generic binding surface II; other site 693745000022 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 693745000023 ATP binding site [chemical binding]; other site 693745000024 putative Mg++ binding site [ion binding]; other site 693745000025 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 693745000026 nucleotide binding region [chemical binding]; other site 693745000027 ATP-binding site [chemical binding]; other site 693745000028 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 693745000029 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745000030 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745000031 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 693745000032 Restriction endonuclease [Defense mechanisms]; Region: COG3587 693745000033 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 693745000034 ATP binding site [chemical binding]; other site 693745000035 putative Mg++ binding site [ion binding]; other site 693745000036 potential frameshift: common BLAST hit: gi|15646126|ref|NP_208308.1| type IIS restriction enzyme R and M protein (ECO57IR) 693745000037 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 693745000038 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 693745000039 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 693745000040 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 693745000041 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 693745000042 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 693745000043 NusA N-terminal domain; Region: NusA_N; pfam08529 693745000044 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 693745000045 RNA binding site [nucleotide binding]; other site 693745000046 homodimer interface [polypeptide binding]; other site 693745000047 NusA-like KH domain; Region: KH_5; pfam13184 693745000048 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 693745000049 G-X-X-G motif; other site 693745000050 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 693745000051 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 693745000052 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 693745000053 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693745000054 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 693745000055 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 693745000056 homooctamer interface [polypeptide binding]; other site 693745000057 active site 693745000058 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 693745000059 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 693745000060 4Fe-4S binding domain; Region: Fer4_5; pfam12801 693745000061 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 693745000062 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 693745000063 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 693745000064 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 693745000065 catalytic motif [active] 693745000066 Zn binding site [ion binding]; other site 693745000067 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 693745000068 RibD C-terminal domain; Region: RibD_C; cl17279 693745000069 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 693745000070 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 693745000071 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 693745000072 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 693745000073 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 693745000074 metal-binding site [ion binding] 693745000075 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 693745000076 Soluble P-type ATPase [General function prediction only]; Region: COG4087 693745000077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 693745000078 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745000079 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 693745000080 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 693745000081 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 693745000082 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 693745000083 Predicted permeases [General function prediction only]; Region: COG0795 693745000084 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 693745000085 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 693745000086 putative active site [active] 693745000087 catalytic residue [active] 693745000088 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 693745000089 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 693745000090 5S rRNA interface [nucleotide binding]; other site 693745000091 CTC domain interface [polypeptide binding]; other site 693745000092 L16 interface [polypeptide binding]; other site 693745000093 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 693745000094 putative active site [active] 693745000095 transaldolase; Provisional; Region: PRK03903 693745000096 catalytic residue [active] 693745000097 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 693745000098 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693745000099 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693745000100 NifU-like domain; Region: NifU; pfam01106 693745000101 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 693745000102 Phosphate transporter family; Region: PHO4; pfam01384 693745000103 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 693745000104 Domain of unknown function DUF21; Region: DUF21; pfam01595 693745000105 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 693745000106 Transporter associated domain; Region: CorC_HlyC; smart01091 693745000107 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 693745000108 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 693745000109 HlyD family secretion protein; Region: HlyD_3; pfam13437 693745000110 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 693745000111 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 693745000112 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 693745000113 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 693745000114 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 693745000115 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 693745000116 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 693745000117 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 693745000118 S-adenosylmethionine binding site [chemical binding]; other site 693745000119 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14065 693745000120 Predicted amidohydrolase [General function prediction only]; Region: COG0388 693745000121 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 693745000122 active site 693745000123 catalytic triad [active] 693745000124 dimer interface [polypeptide binding]; other site 693745000125 seryl-tRNA synthetase; Provisional; Region: PRK05431 693745000126 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 693745000127 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 693745000128 dimer interface [polypeptide binding]; other site 693745000129 active site 693745000130 motif 1; other site 693745000131 motif 2; other site 693745000132 motif 3; other site 693745000133 TPR repeat; Region: TPR_11; pfam13414 693745000134 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 693745000135 TPR motif; other site 693745000136 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 693745000137 binding surface 693745000138 TPR motif; other site 693745000139 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 693745000140 Part of AAA domain; Region: AAA_19; pfam13245 693745000141 Family description; Region: UvrD_C_2; pfam13538 693745000142 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 693745000143 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 693745000144 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 693745000145 Flavoprotein; Region: Flavoprotein; pfam02441 693745000146 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 693745000147 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 693745000148 active site 693745000149 (T/H)XGH motif; other site 693745000150 thymidylate kinase; Validated; Region: tmk; PRK00698 693745000151 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 693745000152 TMP-binding site; other site 693745000153 ATP-binding site [chemical binding]; other site 693745000154 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 693745000155 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 693745000156 potential frameshift: common BLAST hit: gi|208435339|ref|YP_002267005.1| type II restriction enzyme 693745000157 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693745000158 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693745000159 DNA polymerase I; Region: pola; TIGR00593 693745000160 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 693745000161 active site 693745000162 metal binding site 1 [ion binding]; metal-binding site 693745000163 putative 5' ssDNA interaction site; other site 693745000164 metal binding site 3; metal-binding site 693745000165 metal binding site 2 [ion binding]; metal-binding site 693745000166 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 693745000167 putative DNA binding site [nucleotide binding]; other site 693745000168 putative metal binding site [ion binding]; other site 693745000169 3'-5' exonuclease; Region: 35EXOc; smart00474 693745000170 active site 693745000171 substrate binding site [chemical binding]; other site 693745000172 catalytic site [active] 693745000173 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 693745000174 active site 693745000175 DNA binding site [nucleotide binding] 693745000176 catalytic site [active] 693745000177 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745000178 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 693745000179 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 693745000180 homodimer interface [polypeptide binding]; other site 693745000181 substrate-cofactor binding pocket; other site 693745000182 catalytic residue [active] 693745000183 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745000184 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 693745000185 conserved hypothetical integral membrane protein; Region: TIGR00056 693745000186 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 693745000187 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 693745000188 Walker A/P-loop; other site 693745000189 ATP binding site [chemical binding]; other site 693745000190 Q-loop/lid; other site 693745000191 ABC transporter signature motif; other site 693745000192 Walker B; other site 693745000193 D-loop; other site 693745000194 H-loop/switch region; other site 693745000195 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 693745000196 mce related protein; Region: MCE; pfam02470 693745000197 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 693745000198 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 693745000199 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 693745000200 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 693745000201 active site 693745000202 PHP Thumb interface [polypeptide binding]; other site 693745000203 metal binding site [ion binding]; metal-binding site 693745000204 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 693745000205 generic binding surface I; other site 693745000206 generic binding surface II; other site 693745000207 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 693745000208 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 693745000209 RNA binding surface [nucleotide binding]; other site 693745000210 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 693745000211 active site 693745000212 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 693745000213 catalytic residues [active] 693745000214 potential protein location (hypothetical protein predicted by Glimmer/Critica) that overlaps protein (hypothetical protein predicted by Glimmer/Critica) 693745000215 potential protein location (hypothetical protein predicted by Glimmer/Critica) that overlaps protein (hypothetical protein predicted by Glimmer/Critica) 693745000216 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 693745000217 LPP20 lipoprotein precursor; Region: LPP20; pfam02169 693745000218 LPP20 lipoprotein; Region: LPP20; pfam02169 693745000219 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745000220 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 693745000221 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 693745000222 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 693745000223 GTP/Mg2+ binding site [chemical binding]; other site 693745000224 G4 box; other site 693745000225 G5 box; other site 693745000226 trmE is a tRNA modification GTPase; Region: trmE; cd04164 693745000227 G1 box; other site 693745000228 G1 box; other site 693745000229 GTP/Mg2+ binding site [chemical binding]; other site 693745000230 Switch I region; other site 693745000231 Switch I region; other site 693745000232 G2 box; other site 693745000233 G2 box; other site 693745000234 Switch II region; other site 693745000235 G3 box; other site 693745000236 G3 box; other site 693745000237 Switch II region; other site 693745000238 G4 box; other site 693745000239 G5 box; other site 693745000240 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 693745000241 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 693745000242 membrane protein insertase; Provisional; Region: PRK01318 693745000243 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 693745000244 hypothetical protein; Provisional; Region: PRK14374 693745000245 ribonuclease P protein component, eubacterial; Region: rnpA; TIGR00188 693745000246 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 693745000247 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 693745000248 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 693745000249 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 693745000250 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 693745000251 SmpB-tmRNA interface; other site 693745000252 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 693745000253 carbon storage regulator; Provisional; Region: PRK00568 693745000254 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 693745000255 active site 693745000256 rod shape-determining protein MreC; Provisional; Region: PRK13922 693745000257 potential frameshift: common BLAST hit: gi|15646047|ref|NP_208229.1| lipoprotein 693745000258 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 693745000259 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 693745000260 TIR domain; Region: TIR_2; cl17458 693745000261 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 693745000262 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 693745000263 tandem repeat interface [polypeptide binding]; other site 693745000264 oligomer interface [polypeptide binding]; other site 693745000265 active site residues [active] 693745000266 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 693745000267 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 693745000268 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 693745000269 active site 693745000270 substrate binding site [chemical binding]; other site 693745000271 cosubstrate binding site; other site 693745000272 catalytic site [active] 693745000273 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693745000274 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 693745000275 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693745000276 potential protein location (hypothetical protein predicted by Glimmer/Critica) that overlaps protein (hypothetical protein predicted by Glimmer/Critica) 693745000277 potential protein location (hypothetical protein predicted by Glimmer/Critica) that overlaps protein (hypothetical protein predicted by Glimmer/Critica) 693745000278 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 693745000279 dimethyladenosine transferase; Region: ksgA; TIGR00755 693745000280 S-adenosylmethionine binding site [chemical binding]; other site 693745000281 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 693745000282 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 693745000283 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 693745000284 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 693745000285 KpsF/GutQ family protein; Region: kpsF; TIGR00393 693745000286 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 693745000287 putative active site [active] 693745000288 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 693745000289 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 693745000290 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 693745000291 FeS/SAM binding site; other site 693745000292 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745000293 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 693745000294 RNA binding surface [nucleotide binding]; other site 693745000295 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 693745000296 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693745000297 active site 693745000298 HIGH motif; other site 693745000299 nucleotide binding site [chemical binding]; other site 693745000300 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 693745000301 active site 693745000302 KMSKS motif; other site 693745000303 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 693745000304 tRNA binding surface [nucleotide binding]; other site 693745000305 anticodon binding site; other site 693745000306 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 693745000307 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]; Region: VirB11; COG0630 693745000308 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 693745000309 ATP binding site [chemical binding]; other site 693745000310 Walker A motif; other site 693745000311 hexamer interface [polypeptide binding]; other site 693745000312 Walker B motif; other site 693745000313 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 693745000314 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 693745000315 Walker A motif/ATP binding site; other site 693745000316 Walker B motif; other site 693745000317 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 693745000318 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 693745000319 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 693745000320 Restriction endonuclease EcoRI; Region: EcoRI; pfam02963 693745000321 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 693745000322 C-terminal peptidase (prc); Region: prc; TIGR00225 693745000323 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 693745000324 protein binding site [polypeptide binding]; other site 693745000325 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 693745000326 Catalytic dyad [active] 693745000327 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 693745000328 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 693745000329 putative acyl-acceptor binding pocket; other site 693745000330 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 693745000331 ligand binding site [chemical binding]; other site 693745000332 active site 693745000333 UGI interface [polypeptide binding]; other site 693745000334 catalytic site [active] 693745000335 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 693745000336 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 693745000337 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 693745000338 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 693745000339 Phosphoglycerate kinase; Region: PGK; pfam00162 693745000340 substrate binding site [chemical binding]; other site 693745000341 hinge regions; other site 693745000342 ADP binding site [chemical binding]; other site 693745000343 catalytic site [active] 693745000344 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 693745000345 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 693745000346 Cl binding site [ion binding]; other site 693745000347 oligomer interface [polypeptide binding]; other site 693745000348 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 693745000349 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745000350 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 693745000351 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 693745000352 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 693745000353 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 693745000354 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 693745000355 nickel responsive regulator; Provisional; Region: PRK00630 693745000356 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 693745000357 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 693745000358 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 693745000359 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 693745000360 active site 693745000361 (T/H)XGH motif; other site 693745000362 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 693745000363 HSP70 interaction site [polypeptide binding]; other site 693745000364 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 693745000365 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 693745000366 Ligand Binding Site [chemical binding]; other site 693745000367 chaperone protein DnaJ; Provisional; Region: PRK14288 693745000368 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 693745000369 HSP70 interaction site [polypeptide binding]; other site 693745000370 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 693745000371 substrate binding site [polypeptide binding]; other site 693745000372 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 693745000373 Zn binding sites [ion binding]; other site 693745000374 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 693745000375 dimer interface [polypeptide binding]; other site 693745000376 AzlC protein; Region: AzlC; cl00570 693745000377 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 693745000378 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 693745000379 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 693745000380 HlyD family secretion protein; Region: HlyD_3; pfam13437 693745000381 Outer membrane efflux protein; Region: OEP; pfam02321 693745000382 YtkA-like; Region: YtkA; pfam13115 693745000383 fumarate hydratase; Reviewed; Region: fumC; PRK00485 693745000384 Class II fumarases; Region: Fumarase_classII; cd01362 693745000385 active site 693745000386 tetramer interface [polypeptide binding]; other site 693745000387 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 693745000388 RNA/DNA hybrid binding site [nucleotide binding]; other site 693745000389 active site 693745000390 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 693745000391 AAA domain; Region: AAA_14; pfam13173 693745000392 Helix-turn-helix domain; Region: HTH_36; pfam13730 693745000393 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 693745000394 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 693745000395 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 693745000396 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 693745000397 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 693745000398 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 693745000399 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 693745000400 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 693745000401 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 693745000402 putative translocon binding site; other site 693745000403 protein-rRNA interface [nucleotide binding]; other site 693745000404 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 693745000405 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 693745000406 G-X-X-G motif; other site 693745000407 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 693745000408 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 693745000409 23S rRNA interface [nucleotide binding]; other site 693745000410 5S rRNA interface [nucleotide binding]; other site 693745000411 putative antibiotic binding site [chemical binding]; other site 693745000412 L25 interface [polypeptide binding]; other site 693745000413 L27 interface [polypeptide binding]; other site 693745000414 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 693745000415 putative translocon interaction site; other site 693745000416 23S rRNA interface [nucleotide binding]; other site 693745000417 signal recognition particle (SRP54) interaction site; other site 693745000418 L23 interface [polypeptide binding]; other site 693745000419 trigger factor interaction site; other site 693745000420 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 693745000421 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 693745000422 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 693745000423 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 693745000424 RNA binding site [nucleotide binding]; other site 693745000425 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 693745000426 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 693745000427 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 693745000428 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 693745000429 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 693745000430 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 693745000431 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 693745000432 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 693745000433 23S rRNA interface [nucleotide binding]; other site 693745000434 5S rRNA interface [nucleotide binding]; other site 693745000435 L27 interface [polypeptide binding]; other site 693745000436 L5 interface [polypeptide binding]; other site 693745000437 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 693745000438 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 693745000439 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 693745000440 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 693745000441 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 693745000442 SecY translocase; Region: SecY; pfam00344 693745000443 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 693745000444 active site 693745000445 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 693745000446 rRNA binding site [nucleotide binding]; other site 693745000447 predicted 30S ribosome binding site; other site 693745000448 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 693745000449 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 693745000450 30S ribosomal protein S13; Region: bact_S13; TIGR03631 693745000451 30S ribosomal protein S11; Validated; Region: PRK05309 693745000452 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 693745000453 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 693745000454 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 693745000455 RNA binding surface [nucleotide binding]; other site 693745000456 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 693745000457 alphaNTD homodimer interface [polypeptide binding]; other site 693745000458 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 693745000459 alphaNTD - beta interaction site [polypeptide binding]; other site 693745000460 alphaNTD - beta' interaction site [polypeptide binding]; other site 693745000461 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 693745000462 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 693745000463 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 693745000464 Thiamine pyrophosphokinase; Region: TPK; cd07995 693745000465 active site 693745000466 dimerization interface [polypeptide binding]; other site 693745000467 thiamine binding site [chemical binding]; other site 693745000468 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 693745000469 thiaminase II; Region: salvage_TenA; TIGR04306 693745000470 Uncharacterized conserved protein [Function unknown]; Region: COG2353 693745000471 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 693745000472 active site 693745000473 motif I; other site 693745000474 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 693745000475 motif II; other site 693745000476 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 693745000477 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 693745000478 putative active site [active] 693745000479 anthranilate synthase component I; Provisional; Region: PRK13564 693745000480 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 693745000481 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 693745000482 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 693745000483 Glutamine amidotransferase class-I; Region: GATase; pfam00117 693745000484 glutamine binding [chemical binding]; other site 693745000485 catalytic triad [active] 693745000486 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 693745000487 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 693745000488 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 693745000489 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 693745000490 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 693745000491 active site 693745000492 ribulose/triose binding site [chemical binding]; other site 693745000493 phosphate binding site [ion binding]; other site 693745000494 substrate (anthranilate) binding pocket [chemical binding]; other site 693745000495 product (indole) binding pocket [chemical binding]; other site 693745000496 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 693745000497 active site 693745000498 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 693745000499 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 693745000500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693745000501 catalytic residue [active] 693745000502 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 693745000503 substrate binding site [chemical binding]; other site 693745000504 active site 693745000505 catalytic residues [active] 693745000506 heterodimer interface [polypeptide binding]; other site 693745000507 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 693745000508 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 693745000509 active site 693745000510 substrate binding site [chemical binding]; other site 693745000511 metal binding site [ion binding]; metal-binding site 693745000512 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 693745000513 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 693745000514 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 693745000515 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 693745000516 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 693745000517 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 693745000518 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 693745000519 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 693745000520 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 693745000521 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 693745000522 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 693745000523 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 693745000524 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 693745000525 4Fe-4S binding domain; Region: Fer4; cl02805 693745000526 4Fe-4S binding domain; Region: Fer4; pfam00037 693745000527 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 693745000528 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 693745000529 NADH dehydrogenase subunit G; Validated; Region: PRK08493 693745000530 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 693745000531 catalytic loop [active] 693745000532 iron binding site [ion binding]; other site 693745000533 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 693745000534 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 693745000535 molybdopterin cofactor binding site; other site 693745000536 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 693745000537 NADH dehydrogenase subunit D; Validated; Region: PRK06075 693745000538 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 693745000539 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 693745000540 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 693745000541 NADH dehydrogenase subunit B; Validated; Region: PRK06411 693745000542 NADH dehydrogenase subunit A; Validated; Region: PRK08489 693745000543 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 693745000544 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 693745000545 NAD+ binding site [chemical binding]; other site 693745000546 substrate binding site [chemical binding]; other site 693745000547 Zn binding site [ion binding]; other site 693745000548 RDD family; Region: RDD; pfam06271 693745000549 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693745000550 active site 693745000551 ribosome recycling factor; Reviewed; Region: frr; PRK00083 693745000552 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 693745000553 hinge region; other site 693745000554 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 693745000555 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 693745000556 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 693745000557 S-adenosylmethionine binding site [chemical binding]; other site 693745000558 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 693745000559 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 693745000560 active site 693745000561 HIGH motif; other site 693745000562 dimer interface [polypeptide binding]; other site 693745000563 KMSKS motif; other site 693745000564 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 693745000565 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 693745000566 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 693745000567 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 693745000568 dimer interface [polypeptide binding]; other site 693745000569 conserved gate region; other site 693745000570 putative PBP binding loops; other site 693745000571 ABC-ATPase subunit interface; other site 693745000572 Bacterial SH3 domain; Region: SH3_3; pfam08239 693745000573 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 693745000574 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 693745000575 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 693745000576 shikimate binding site; other site 693745000577 NAD(P) binding site [chemical binding]; other site 693745000578 Exoribonuclease R [Transcription]; Region: VacB; COG0557 693745000579 RNB domain; Region: RNB; pfam00773 693745000580 DNA polymerase III subunit delta; Validated; Region: PRK08487 693745000581 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 693745000582 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 693745000583 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 693745000584 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 693745000585 dimer interface [polypeptide binding]; other site 693745000586 ssDNA binding site [nucleotide binding]; other site 693745000587 tetramer (dimer of dimers) interface [polypeptide binding]; other site 693745000588 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 693745000589 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745000590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 693745000591 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 693745000592 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 693745000593 motif 1; other site 693745000594 active site 693745000595 motif 2; other site 693745000596 motif 3; other site 693745000597 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 693745000598 DHHA1 domain; Region: DHHA1; pfam02272 693745000599 Maf-like protein; Region: Maf; pfam02545 693745000600 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 693745000601 active site 693745000602 dimer interface [polypeptide binding]; other site 693745000603 formamidase; Provisional; Region: amiF; PRK13287 693745000604 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 693745000605 multimer interface [polypeptide binding]; other site 693745000606 active site 693745000607 catalytic triad [active] 693745000608 dimer interface [polypeptide binding]; other site 693745000609 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 693745000610 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 693745000611 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 693745000612 catalytic site [active] 693745000613 subunit interface [polypeptide binding]; other site 693745000614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 693745000615 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 693745000616 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 693745000617 EamA-like transporter family; Region: EamA; pfam00892 693745000618 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 693745000619 dihydropteroate synthase; Region: DHPS; TIGR01496 693745000620 substrate binding pocket [chemical binding]; other site 693745000621 dimer interface [polypeptide binding]; other site 693745000622 inhibitor binding site; inhibition site 693745000623 DNA polymerase III subunit delta'; Validated; Region: PRK08485 693745000624 DNA replication regulator; Region: HobA; pfam12163 693745000625 aspartate kinase; Reviewed; Region: PRK06635 693745000626 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 693745000627 putative nucleotide binding site [chemical binding]; other site 693745000628 putative catalytic residues [active] 693745000629 putative Mg ion binding site [ion binding]; other site 693745000630 putative aspartate binding site [chemical binding]; other site 693745000631 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 693745000632 putative allosteric regulatory site; other site 693745000633 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 693745000634 putative allosteric regulatory residue; other site 693745000635 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 693745000636 putative active site [active] 693745000637 Ap4A binding site [chemical binding]; other site 693745000638 nudix motif; other site 693745000639 putative metal binding site [ion binding]; other site 693745000640 Cytochrome c553 [Energy production and conversion]; Region: COG2863 693745000641 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 693745000642 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 693745000643 FeS/SAM binding site; other site 693745000644 HemN C-terminal domain; Region: HemN_C; pfam06969 693745000645 camphor resistance protein CrcB; Provisional; Region: PRK14204 693745000646 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 693745000647 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 693745000648 active site 693745000649 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 693745000650 active site residue [active] 693745000651 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 693745000652 FAD binding domain; Region: FAD_binding_4; pfam01565 693745000653 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 693745000654 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 693745000655 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 693745000656 catalytic residue [active] 693745000657 putative FPP diphosphate binding site; other site 693745000658 putative FPP binding hydrophobic cleft; other site 693745000659 dimer interface [polypeptide binding]; other site 693745000660 putative IPP diphosphate binding site; other site 693745000661 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 693745000662 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 693745000663 Walker A/P-loop; other site 693745000664 ATP binding site [chemical binding]; other site 693745000665 Q-loop/lid; other site 693745000666 ABC transporter signature motif; other site 693745000667 Walker B; other site 693745000668 D-loop; other site 693745000669 H-loop/switch region; other site 693745000670 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 693745000671 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 693745000672 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 693745000673 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 693745000674 Predicted membrane protein/domain [Function unknown]; Region: COG1714 693745000675 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 693745000676 Organic solvent tolerance protein; Region: OstA_C; pfam04453 693745000677 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 693745000678 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 693745000679 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 693745000680 oligomer interface [polypeptide binding]; other site 693745000681 RNA binding site [nucleotide binding]; other site 693745000682 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 693745000683 oligomer interface [polypeptide binding]; other site 693745000684 RNA binding site [nucleotide binding]; other site 693745000685 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 693745000686 putative nucleic acid binding region [nucleotide binding]; other site 693745000687 G-X-X-G motif; other site 693745000688 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 693745000689 RNA binding site [nucleotide binding]; other site 693745000690 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 693745000691 serine O-acetyltransferase; Region: cysE; TIGR01172 693745000692 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 693745000693 trimer interface [polypeptide binding]; other site 693745000694 active site 693745000695 substrate binding site [chemical binding]; other site 693745000696 CoA binding site [chemical binding]; other site 693745000697 potential frameshift: common BLAST hit: gi|15645823|ref|NP_208001.1| ulcer-associated gene restriction endonuclease (iceA) 693745000698 ICEA Protein; Region: ICEA; pfam05315 693745000699 ICEA Protein; Region: ICEA; pfam05315 693745000700 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 693745000701 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 693745000702 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 693745000703 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 693745000704 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 693745000705 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 693745000706 Walker A/P-loop; other site 693745000707 ATP binding site [chemical binding]; other site 693745000708 Q-loop/lid; other site 693745000709 ABC transporter signature motif; other site 693745000710 Walker B; other site 693745000711 D-loop; other site 693745000712 H-loop/switch region; other site 693745000713 elongation factor Tu; Reviewed; Region: PRK00049 693745000714 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 693745000715 G1 box; other site 693745000716 GEF interaction site [polypeptide binding]; other site 693745000717 GTP/Mg2+ binding site [chemical binding]; other site 693745000718 Switch I region; other site 693745000719 G2 box; other site 693745000720 G3 box; other site 693745000721 Switch II region; other site 693745000722 G4 box; other site 693745000723 G5 box; other site 693745000724 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 693745000725 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 693745000726 Antibiotic Binding Site [chemical binding]; other site 693745000727 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 693745000728 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 693745000729 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 693745000730 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 693745000731 putative homodimer interface [polypeptide binding]; other site 693745000732 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 693745000733 heterodimer interface [polypeptide binding]; other site 693745000734 homodimer interface [polypeptide binding]; other site 693745000735 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 693745000736 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 693745000737 23S rRNA interface [nucleotide binding]; other site 693745000738 L7/L12 interface [polypeptide binding]; other site 693745000739 putative thiostrepton binding site; other site 693745000740 L25 interface [polypeptide binding]; other site 693745000741 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 693745000742 mRNA/rRNA interface [nucleotide binding]; other site 693745000743 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 693745000744 23S rRNA interface [nucleotide binding]; other site 693745000745 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 693745000746 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 693745000747 core dimer interface [polypeptide binding]; other site 693745000748 peripheral dimer interface [polypeptide binding]; other site 693745000749 L10 interface [polypeptide binding]; other site 693745000750 L11 interface [polypeptide binding]; other site 693745000751 putative EF-Tu interaction site [polypeptide binding]; other site 693745000752 putative EF-G interaction site [polypeptide binding]; other site 693745000753 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 693745000754 S17 interaction site [polypeptide binding]; other site 693745000755 S8 interaction site; other site 693745000756 16S rRNA interaction site [nucleotide binding]; other site 693745000757 streptomycin interaction site [chemical binding]; other site 693745000758 23S rRNA interaction site [nucleotide binding]; other site 693745000759 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 693745000760 30S ribosomal protein S7; Validated; Region: PRK05302 693745000761 elongation factor G; Reviewed; Region: PRK00007 693745000762 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 693745000763 G1 box; other site 693745000764 putative GEF interaction site [polypeptide binding]; other site 693745000765 GTP/Mg2+ binding site [chemical binding]; other site 693745000766 Switch I region; other site 693745000767 G2 box; other site 693745000768 G3 box; other site 693745000769 Switch II region; other site 693745000770 G4 box; other site 693745000771 G5 box; other site 693745000772 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 693745000773 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 693745000774 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 693745000775 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 693745000776 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 693745000777 active site 693745000778 catalytic tetrad [active] 693745000779 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 693745000780 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 693745000781 putative active site [active] 693745000782 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 693745000783 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 693745000784 dimer interface [polypeptide binding]; other site 693745000785 motif 1; other site 693745000786 active site 693745000787 motif 2; other site 693745000788 motif 3; other site 693745000789 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 693745000790 anticodon binding site; other site 693745000791 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 693745000792 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 693745000793 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 693745000794 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 693745000795 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 693745000796 active site 693745000797 zinc binding site [ion binding]; other site 693745000798 putative arabinose transporter; Provisional; Region: PRK03545 693745000799 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 693745000800 putative substrate translocation pore; other site 693745000801 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 693745000802 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 693745000803 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 693745000804 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 693745000805 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 693745000806 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 693745000807 Ligand Binding Site [chemical binding]; other site 693745000808 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 693745000809 Major Facilitator Superfamily; Region: MFS_1; pfam07690 693745000810 putative substrate translocation pore; other site 693745000811 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 693745000812 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 693745000813 Nucleoside recognition; Region: Gate; pfam07670 693745000814 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 693745000815 phosphopentomutase; Provisional; Region: PRK05362 693745000816 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 693745000817 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 693745000818 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 693745000819 GIY-YIG motif/motif A; other site 693745000820 active site 693745000821 catalytic site [active] 693745000822 metal binding site [ion binding]; metal-binding site 693745000823 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 693745000824 S-adenosylmethionine binding site [chemical binding]; other site 693745000825 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745000826 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 693745000827 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 693745000828 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 693745000829 putative substrate translocation pore; other site 693745000830 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 693745000831 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 693745000832 substrate binding pocket [chemical binding]; other site 693745000833 membrane-bound complex binding site; other site 693745000834 hinge residues; other site 693745000835 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 693745000836 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 693745000837 Walker A/P-loop; other site 693745000838 ATP binding site [chemical binding]; other site 693745000839 Q-loop/lid; other site 693745000840 ABC transporter signature motif; other site 693745000841 Walker B; other site 693745000842 D-loop; other site 693745000843 H-loop/switch region; other site 693745000844 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 693745000845 dimer interface [polypeptide binding]; other site 693745000846 conserved gate region; other site 693745000847 putative PBP binding loops; other site 693745000848 ABC-ATPase subunit interface; other site 693745000849 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 693745000850 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 693745000851 dimer interface [polypeptide binding]; other site 693745000852 conserved gate region; other site 693745000853 putative PBP binding loops; other site 693745000854 ABC-ATPase subunit interface; other site 693745000855 carbon starvation protein A; Provisional; Region: PRK15015 693745000856 Carbon starvation protein CstA; Region: CstA; pfam02554 693745000857 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 693745000858 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 693745000859 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 693745000860 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 693745000861 active site 693745000862 dimer interface [polypeptide binding]; other site 693745000863 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 693745000864 dimer interface [polypeptide binding]; other site 693745000865 active site 693745000866 Major Facilitator Superfamily; Region: MFS_1; pfam07690 693745000867 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 693745000868 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 693745000869 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693745000870 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 693745000871 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 693745000872 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 693745000873 flavodoxin FldA; Validated; Region: PRK09267 693745000874 metal-binding heat shock protein; Provisional; Region: PRK00016 693745000875 potential frameshift: common BLAST hit: gi|15645773|ref|NP_207950.1| cell filamentation protein (fic) 693745000876 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 693745000877 Fic/DOC family; Region: Fic; pfam02661 693745000878 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 693745000879 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 693745000880 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745000881 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745000882 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 693745000883 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 693745000884 active site 693745000885 homodimer interface [polypeptide binding]; other site 693745000886 flagellar assembly protein FliW; Provisional; Region: PRK13283 693745000887 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 693745000888 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693745000889 active site 693745000890 HIGH motif; other site 693745000891 nucleotide binding site [chemical binding]; other site 693745000892 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 693745000893 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 693745000894 active site 693745000895 KMSKS motif; other site 693745000896 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 693745000897 anticodon binding site; other site 693745000898 signal recognition particle protein; Provisional; Region: PRK10867 693745000899 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 693745000900 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 693745000901 P loop; other site 693745000902 GTP binding site [chemical binding]; other site 693745000903 Signal peptide binding domain; Region: SRP_SPB; pfam02978 693745000904 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 693745000905 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 693745000906 KH domain; Region: KH_4; pfam13083 693745000907 G-X-X-G motif; other site 693745000908 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 693745000909 RimM N-terminal domain; Region: RimM; pfam01782 693745000910 PRC-barrel domain; Region: PRC; pfam05239 693745000911 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 693745000912 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 693745000913 Uncharacterized conserved protein [Function unknown]; Region: COG1432 693745000914 LabA_like proteins; Region: LabA_like; cd06167 693745000915 putative metal binding site [ion binding]; other site 693745000916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 693745000917 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 693745000918 PHP-associated; Region: PHP_C; pfam13263 693745000919 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693745000920 Walker A/P-loop; other site 693745000921 ATP binding site [chemical binding]; other site 693745000922 Q-loop/lid; other site 693745000923 ABC transporter signature motif; other site 693745000924 AAA domain; Region: AAA_21; pfam13304 693745000925 biotin--protein ligase; Provisional; Region: PRK08477 693745000926 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 693745000927 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 693745000928 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 693745000929 P-loop; other site 693745000930 Magnesium ion binding site [ion binding]; other site 693745000931 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 693745000932 ParB-like nuclease domain; Region: ParB; smart00470 693745000933 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 693745000934 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 693745000935 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 693745000936 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13431 693745000937 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 693745000938 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 693745000939 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 693745000940 beta subunit interaction interface [polypeptide binding]; other site 693745000941 Walker A motif; other site 693745000942 ATP binding site [chemical binding]; other site 693745000943 Walker B motif; other site 693745000944 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 693745000945 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 693745000946 core domain interface [polypeptide binding]; other site 693745000947 delta subunit interface [polypeptide binding]; other site 693745000948 epsilon subunit interface [polypeptide binding]; other site 693745000949 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 693745000950 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 693745000951 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 693745000952 alpha subunit interaction interface [polypeptide binding]; other site 693745000953 Walker A motif; other site 693745000954 ATP binding site [chemical binding]; other site 693745000955 Walker B motif; other site 693745000956 inhibitor binding site; inhibition site 693745000957 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 693745000958 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 693745000959 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 693745000960 gamma subunit interface [polypeptide binding]; other site 693745000961 epsilon subunit interface [polypeptide binding]; other site 693745000962 LBP interface [polypeptide binding]; other site 693745000963 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 693745000964 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 693745000965 TolR protein; Region: tolR; TIGR02801 693745000966 TonB C terminal; Region: TonB_2; pfam13103 693745000967 translocation protein TolB; Provisional; Region: tolB; PRK04043 693745000968 TolB amino-terminal domain; Region: TolB_N; pfam04052 693745000969 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 693745000970 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 693745000971 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693745000972 ligand binding site [chemical binding]; other site 693745000973 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 693745000974 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 693745000975 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 693745000976 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 693745000977 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 693745000978 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 693745000979 cofactor binding site; other site 693745000980 DNA binding site [nucleotide binding] 693745000981 substrate interaction site [chemical binding]; other site 693745000982 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 693745000983 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 693745000984 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 693745000985 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 693745000986 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 693745000987 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 693745000988 binding surface 693745000989 TPR motif; other site 693745000990 Sel1-like repeats; Region: SEL1; smart00671 693745000991 Sel1-like repeats; Region: SEL1; smart00671 693745000992 Sel1-like repeats; Region: SEL1; smart00671 693745000993 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 693745000994 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 693745000995 excinuclease ABC subunit B; Provisional; Region: PRK05298 693745000996 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 693745000997 ATP binding site [chemical binding]; other site 693745000998 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 693745000999 putative Mg++ binding site [ion binding]; other site 693745001000 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 693745001001 nucleotide binding region [chemical binding]; other site 693745001002 ATP-binding site [chemical binding]; other site 693745001003 Ultra-violet resistance protein B; Region: UvrB; pfam12344 693745001004 UvrB/uvrC motif; Region: UVR; pfam02151 693745001005 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745001006 adenylosuccinate lyase; Provisional; Region: PRK08470 693745001007 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 693745001008 tetramer interface [polypeptide binding]; other site 693745001009 active site 693745001010 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 693745001011 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 693745001012 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 693745001013 TPP-binding site [chemical binding]; other site 693745001014 putative dimer interface [polypeptide binding]; other site 693745001015 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 693745001016 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 693745001017 dimer interface [polypeptide binding]; other site 693745001018 PYR/PP interface [polypeptide binding]; other site 693745001019 TPP binding site [chemical binding]; other site 693745001020 substrate binding site [chemical binding]; other site 693745001021 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 693745001022 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 693745001023 4Fe-4S binding domain; Region: Fer4; pfam00037 693745001024 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 693745001025 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 693745001026 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745001027 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 693745001028 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 693745001029 active site 693745001030 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 693745001031 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 693745001032 putative NAD(P) binding site [chemical binding]; other site 693745001033 putative substrate binding site [chemical binding]; other site 693745001034 catalytic Zn binding site [ion binding]; other site 693745001035 structural Zn binding site [ion binding]; other site 693745001036 dimer interface [polypeptide binding]; other site 693745001037 glucokinase, proteobacterial type; Region: glk; TIGR00749 693745001038 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 693745001039 nucleotide binding site [chemical binding]; other site 693745001040 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 693745001041 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 693745001042 putative active site [active] 693745001043 Glucose-6-phosphate 1-dehydrogenase [Carbohydrate transport and metabolism]; Region: Zwf; COG0364 693745001044 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 693745001045 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 693745001046 phosphogluconate dehydratase; Validated; Region: PRK09054 693745001047 6-phosphogluconate dehydratase; Region: edd; TIGR01196 693745001048 Entner-Doudoroff aldolase; Region: eda; TIGR01182 693745001049 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 693745001050 active site 693745001051 intersubunit interface [polypeptide binding]; other site 693745001052 catalytic residue [active] 693745001053 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 693745001054 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 693745001055 binding surface 693745001056 TPR motif; other site 693745001057 Sel1-like repeats; Region: SEL1; smart00671 693745001058 Sel1-like repeats; Region: SEL1; smart00671 693745001059 Sel1-like repeats; Region: SEL1; smart00671 693745001060 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 693745001061 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 693745001062 putative NAD(P) binding site [chemical binding]; other site 693745001063 homodimer interface [polypeptide binding]; other site 693745001064 homotetramer interface [polypeptide binding]; other site 693745001065 active site 693745001066 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 693745001067 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 693745001068 NAD binding site [chemical binding]; other site 693745001069 homodimer interface [polypeptide binding]; other site 693745001070 active site 693745001071 substrate binding site [chemical binding]; other site 693745001072 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 693745001073 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 693745001074 dimerization interface 3.5A [polypeptide binding]; other site 693745001075 active site 693745001076 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 693745001077 Predicted permeases [General function prediction only]; Region: COG0795 693745001078 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 693745001079 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 693745001080 S-adenosylmethionine binding site [chemical binding]; other site 693745001081 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 693745001082 dimer interface [polypeptide binding]; other site 693745001083 putative radical transfer pathway; other site 693745001084 diiron center [ion binding]; other site 693745001085 tyrosyl radical; other site 693745001086 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 693745001087 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 693745001088 inhibitor-cofactor binding pocket; inhibition site 693745001089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693745001090 catalytic residue [active] 693745001091 Methyltransferase domain; Region: Methyltransf_26; pfam13659 693745001092 biotin carboxylase; Validated; Region: PRK08462 693745001093 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 693745001094 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 693745001095 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 693745001096 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 693745001097 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 693745001098 carboxyltransferase (CT) interaction site; other site 693745001099 biotinylation site [posttranslational modification]; other site 693745001100 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 693745001101 trimer interface [polypeptide binding]; other site 693745001102 active site 693745001103 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745001104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 693745001105 RNA methyltransferase, RsmE family; Region: TIGR00046 693745001106 ferrochelatase; Region: hemH; TIGR00109 693745001107 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 693745001108 C-terminal domain interface [polypeptide binding]; other site 693745001109 active site 693745001110 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 693745001111 active site 693745001112 N-terminal domain interface [polypeptide binding]; other site 693745001113 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 693745001114 catalytic residues [active] 693745001115 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 693745001116 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 693745001117 potential frameshift: common BLAST hit: gi|210135235|ref|YP_002301674.1| alpha-1,3-fucosyltransferase 693745001118 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 693745001119 glutamate dehydrogenase; Provisional; Region: PRK09414 693745001120 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 693745001121 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 693745001122 NAD(P) binding site [chemical binding]; other site 693745001123 HemK family putative methylases; Region: hemK_fam; TIGR00536 693745001124 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 693745001125 Peptidase family M48; Region: Peptidase_M48; pfam01435 693745001126 Sporulation related domain; Region: SPOR; pfam05036 693745001127 primosome assembly protein PriA; Validated; Region: PRK05580 693745001128 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 693745001129 ATP binding site [chemical binding]; other site 693745001130 putative Mg++ binding site [ion binding]; other site 693745001131 helicase superfamily c-terminal domain; Region: HELICc; smart00490 693745001132 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 693745001133 S-adenosylmethionine binding site [chemical binding]; other site 693745001134 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 693745001135 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 693745001136 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 693745001137 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 693745001138 dimer interface [polypeptide binding]; other site 693745001139 catalytic triad [active] 693745001140 peroxidatic and resolving cysteines [active] 693745001141 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 693745001142 putative CheA interaction surface; other site 693745001143 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 693745001144 putative binding surface; other site 693745001145 active site 693745001146 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 693745001147 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 693745001148 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 693745001149 ATP binding site [chemical binding]; other site 693745001150 Mg2+ binding site [ion binding]; other site 693745001151 G-X-G motif; other site 693745001152 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 693745001153 Response regulator receiver domain; Region: Response_reg; pfam00072 693745001154 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 693745001155 active site 693745001156 phosphorylation site [posttranslational modification] 693745001157 intermolecular recognition site; other site 693745001158 dimerization interface [polypeptide binding]; other site 693745001159 potential frameshift: common BLAST hit: gi|254779615|ref|YP_003057721.1| Chemotaxis protein CheV 693745001160 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 693745001161 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 693745001162 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 693745001163 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 693745001164 phosphorylation site [posttranslational modification] 693745001165 intermolecular recognition site; other site 693745001166 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 693745001167 putative active site [active] 693745001168 putative metal binding site [ion binding]; other site 693745001169 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 693745001170 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693745001171 catalytic residue [active] 693745001172 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 693745001173 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 693745001174 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 693745001175 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 693745001176 ligand binding site [chemical binding]; other site 693745001177 NAD binding site [chemical binding]; other site 693745001178 dimerization interface [polypeptide binding]; other site 693745001179 catalytic site [active] 693745001180 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 693745001181 putative L-serine binding site [chemical binding]; other site 693745001182 ribosomal protein S1; Region: rpsA; TIGR00717 693745001183 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 693745001184 RNA binding site [nucleotide binding]; other site 693745001185 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 693745001186 RNA binding site [nucleotide binding]; other site 693745001187 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 693745001188 RNA binding site [nucleotide binding]; other site 693745001189 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 693745001190 RNA binding site [nucleotide binding]; other site 693745001191 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; cd00164 693745001192 RNA binding site [nucleotide binding]; other site 693745001193 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 693745001194 LytB protein; Region: LYTB; pfam02401 693745001195 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 693745001196 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 693745001197 hinge; other site 693745001198 active site 693745001199 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 693745001200 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 693745001201 putative tRNA-binding site [nucleotide binding]; other site 693745001202 tRNA synthetase B5 domain; Region: B5; pfam03484 693745001203 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 693745001204 dimer interface [polypeptide binding]; other site 693745001205 motif 1; other site 693745001206 motif 3; other site 693745001207 motif 2; other site 693745001208 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 693745001209 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 693745001210 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 693745001211 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 693745001212 dimer interface [polypeptide binding]; other site 693745001213 motif 1; other site 693745001214 active site 693745001215 motif 2; other site 693745001216 motif 3; other site 693745001217 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 693745001218 nucleotide binding site/active site [active] 693745001219 HIT family signature motif; other site 693745001220 catalytic residue [active] 693745001221 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 693745001222 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 693745001223 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693745001224 catalytic residue [active] 693745001225 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 693745001226 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 693745001227 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 693745001228 molybdopterin cofactor binding site [chemical binding]; other site 693745001229 substrate binding site [chemical binding]; other site 693745001230 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 693745001231 molybdopterin cofactor binding site; other site 693745001232 GMP synthase; Reviewed; Region: guaA; PRK00074 693745001233 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 693745001234 AMP/PPi binding site [chemical binding]; other site 693745001235 candidate oxyanion hole; other site 693745001236 catalytic triad [active] 693745001237 potential glutamine specificity residues [chemical binding]; other site 693745001238 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 693745001239 ATP Binding subdomain [chemical binding]; other site 693745001240 Ligand Binding sites [chemical binding]; other site 693745001241 Dimerization subdomain; other site 693745001242 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 693745001243 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 693745001244 Mechanosensitive ion channel; Region: MS_channel; pfam00924 693745001245 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 693745001246 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 693745001247 S-adenosylmethionine binding site [chemical binding]; other site 693745001248 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 693745001249 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 693745001250 active site 693745001251 HIGH motif; other site 693745001252 KMSKS motif; other site 693745001253 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 693745001254 anticodon binding site; other site 693745001255 tRNA binding surface [nucleotide binding]; other site 693745001256 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 693745001257 dimer interface [polypeptide binding]; other site 693745001258 putative tRNA-binding site [nucleotide binding]; other site 693745001259 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 693745001260 Methyltransferase domain; Region: Methyltransf_23; pfam13489 693745001261 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 693745001262 S-adenosylmethionine binding site [chemical binding]; other site 693745001263 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 693745001264 active site 2 [active] 693745001265 active site 1 [active] 693745001266 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693745001267 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 693745001268 putative ADP-binding pocket [chemical binding]; other site 693745001269 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 693745001270 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 693745001271 active site 693745001272 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693745001273 catalytic residues [active] 693745001274 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 693745001275 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 693745001276 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 693745001277 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745001278 Protein of unknown function DUF262; Region: DUF262; pfam03235 693745001279 Protein of unknown function DUF262; Region: DUF262; pfam03235 693745001280 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 693745001281 Toprim-like; Region: Toprim_2; pfam13155 693745001282 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 693745001283 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 693745001284 AAA-like domain; Region: AAA_10; pfam12846 693745001285 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 693745001286 Walker A motif; other site 693745001287 ATP binding site [chemical binding]; other site 693745001288 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 693745001289 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 693745001290 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 693745001291 active site 693745001292 interdomain interaction site; other site 693745001293 putative metal-binding site [ion binding]; other site 693745001294 nucleotide binding site [chemical binding]; other site 693745001295 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 693745001296 domain I; other site 693745001297 DNA binding groove [nucleotide binding] 693745001298 phosphate binding site [ion binding]; other site 693745001299 domain II; other site 693745001300 domain III; other site 693745001301 nucleotide binding site [chemical binding]; other site 693745001302 catalytic site [active] 693745001303 domain IV; other site 693745001304 potential frameshift: common BLAST hit: gi|210134661|ref|YP_002301100.1| VirB8 type IV secretion protein 693745001305 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 693745001306 potential frameshift: common BLAST hit: gi|208434919|ref|YP_002266585.1| comB9-like competence protein 693745001307 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 693745001308 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 693745001309 potential frameshift: common BLAST hit: gi|210134659|ref|YP_002301098.1| VirB10 type IV secretion protein 693745001310 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 693745001311 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 693745001312 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 693745001313 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 693745001314 Walker A motif; other site 693745001315 hexamer interface [polypeptide binding]; other site 693745001316 ATP binding site [chemical binding]; other site 693745001317 Walker B motif; other site 693745001318 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 693745001319 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 693745001320 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 693745001321 P-loop; other site 693745001322 Magnesium ion binding site [ion binding]; other site 693745001323 Methyltransferase domain; Region: Methyltransf_26; pfam13659 693745001324 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 693745001325 DEAD-like helicases superfamily; Region: DEXDc; smart00487 693745001326 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 693745001327 helicase superfamily c-terminal domain; Region: HELICc; smart00490 693745001328 nucleotide binding region [chemical binding]; other site 693745001329 ATP-binding site [chemical binding]; other site 693745001330 potential frameshift: common BLAST hit: gi|210134636|ref|YP_002301075.1| VirB6 type IV secretion protein 693745001331 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 693745001332 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 693745001333 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 693745001334 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 693745001335 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 693745001336 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 693745001337 active site 693745001338 catalytic residues [active] 693745001339 DNA binding site [nucleotide binding] 693745001340 Int/Topo IB signature motif; other site 693745001341 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 693745001342 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 693745001343 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 693745001344 Toprim-like; Region: Toprim_2; pfam13155 693745001345 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 693745001346 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 693745001347 P-loop; other site 693745001348 Magnesium ion binding site [ion binding]; other site 693745001349 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 693745001350 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 693745001351 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 693745001352 active site 693745001353 interdomain interaction site; other site 693745001354 putative metal-binding site [ion binding]; other site 693745001355 nucleotide binding site [chemical binding]; other site 693745001356 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 693745001357 domain I; other site 693745001358 DNA binding groove [nucleotide binding] 693745001359 phosphate binding site [ion binding]; other site 693745001360 domain II; other site 693745001361 domain III; other site 693745001362 nucleotide binding site [chemical binding]; other site 693745001363 catalytic site [active] 693745001364 domain IV; other site 693745001365 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 693745001366 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 693745001367 Walker A motif; other site 693745001368 ATP binding site [chemical binding]; other site 693745001369 Walker B motif; other site 693745001370 Replication regulatory protein RepB; Region: RepB-RCR_reg; cl11673 693745001371 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 693745001372 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 693745001373 Walker A motif; other site 693745001374 hexamer interface [polypeptide binding]; other site 693745001375 ATP binding site [chemical binding]; other site 693745001376 Walker B motif; other site 693745001377 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 693745001378 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 693745001379 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 693745001380 VirB7 interaction site; other site 693745001381 VirB8 protein; Region: VirB8; cl01500 693745001382 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 693745001383 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 693745001384 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 693745001385 Walker A motif; other site 693745001386 ATP binding site [chemical binding]; other site 693745001387 Walker B motif; other site 693745001388 TrbC/VIRB2 family; Region: TrbC; pfam04956 693745001389 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 693745001390 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 693745001391 active site 693745001392 catalytic residues [active] 693745001393 DNA binding site [nucleotide binding] 693745001394 Int/Topo IB signature motif; other site 693745001395 Mechanosensitive ion channel; Region: MS_channel; pfam00924 693745001396 cell division protein FtsZ; Validated; Region: PRK09330 693745001397 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 693745001398 nucleotide binding site [chemical binding]; other site 693745001399 SulA interaction site; other site 693745001400 cell division protein FtsA; Region: ftsA; TIGR01174 693745001401 Cell division protein FtsA; Region: FtsA; smart00842 693745001402 Cell division protein FtsA; Region: FtsA; pfam14450 693745001403 SurA N-terminal domain; Region: SurA_N_3; cl07813 693745001404 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 693745001405 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 693745001406 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 693745001407 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 693745001408 inhibitor-cofactor binding pocket; inhibition site 693745001409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693745001410 catalytic residue [active] 693745001411 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 693745001412 phosphoglyceromutase; Provisional; Region: PRK05434 693745001413 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 693745001414 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 693745001415 Outer membrane efflux protein; Region: OEP; pfam02321 693745001416 Outer membrane efflux protein; Region: OEP; pfam02321 693745001417 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 693745001418 HlyD family secretion protein; Region: HlyD_3; pfam13437 693745001419 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 693745001420 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 693745001421 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 693745001422 G1 box; other site 693745001423 GTP/Mg2+ binding site [chemical binding]; other site 693745001424 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 693745001425 G2 box; other site 693745001426 Switch I region; other site 693745001427 G3 box; other site 693745001428 Switch II region; other site 693745001429 G4 box; other site 693745001430 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 693745001431 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 693745001432 G1 box; other site 693745001433 GTP/Mg2+ binding site [chemical binding]; other site 693745001434 G2 box; other site 693745001435 Switch I region; other site 693745001436 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 693745001437 G3 box; other site 693745001438 Switch II region; other site 693745001439 G4 box; other site 693745001440 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 693745001441 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 693745001442 G1 box; other site 693745001443 GTP/Mg2+ binding site [chemical binding]; other site 693745001444 G2 box; other site 693745001445 Switch I region; other site 693745001446 G3 box; other site 693745001447 Switch II region; other site 693745001448 G4 box; other site 693745001449 G5 box; other site 693745001450 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 693745001451 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 693745001452 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 693745001453 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 693745001454 dimer interface [polypeptide binding]; other site 693745001455 motif 1; other site 693745001456 active site 693745001457 motif 2; other site 693745001458 motif 3; other site 693745001459 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 693745001460 Uncharacterized conserved protein [Function unknown]; Region: COG0327 693745001461 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 693745001462 Putative zinc ribbon domain; Region: DUF164; pfam02591 693745001463 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 693745001464 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 693745001465 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 693745001466 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 693745001467 active site 693745001468 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 693745001469 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 693745001470 dimer interface [polypeptide binding]; other site 693745001471 FMN binding site [chemical binding]; other site 693745001472 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 693745001473 putative recombination protein RecO; Provisional; Region: PRK13908 693745001474 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 693745001475 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 693745001476 Uncharacterized conserved protein [Function unknown]; Region: COG1576 693745001477 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 693745001478 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 693745001479 homotrimer interaction site [polypeptide binding]; other site 693745001480 putative active site [active] 693745001481 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 693745001482 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 693745001483 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 693745001484 amino acid carrier protein; Region: agcS; TIGR00835 693745001485 alanine racemase; Region: alr; TIGR00492 693745001486 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 693745001487 active site 693745001488 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693745001489 dimer interface [polypeptide binding]; other site 693745001490 substrate binding site [chemical binding]; other site 693745001491 catalytic residues [active] 693745001492 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 693745001493 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 693745001494 substrate binding pocket [chemical binding]; other site 693745001495 membrane-bound complex binding site; other site 693745001496 hinge residues; other site 693745001497 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 693745001498 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 693745001499 dimer interface [polypeptide binding]; other site 693745001500 conserved gate region; other site 693745001501 putative PBP binding loops; other site 693745001502 ABC-ATPase subunit interface; other site 693745001503 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745001504 Protein of unknown function DUF262; Region: DUF262; pfam03235 693745001505 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745001506 Protein of unknown function DUF262; Region: DUF262; pfam03235 693745001507 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745001508 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 693745001509 putative substrate translocation pore; other site 693745001510 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745001511 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693745001512 Coenzyme A binding pocket [chemical binding]; other site 693745001513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 693745001514 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 693745001515 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 693745001516 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 693745001517 Predicted acid phosphatase [General function prediction only]; Region: SurE; COG0496 693745001518 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 693745001519 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 693745001520 substrate binding pocket [chemical binding]; other site 693745001521 chain length determination region; other site 693745001522 substrate-Mg2+ binding site; other site 693745001523 catalytic residues [active] 693745001524 aspartate-rich region 1; other site 693745001525 active site lid residues [active] 693745001526 aspartate-rich region 2; other site 693745001527 GTP cyclohydrolase I; Region: folE; TIGR00063 693745001528 GTP cyclohydrolase I; Provisional; Region: PLN03044 693745001529 active site 693745001530 heat shock protein HtpX; Provisional; Region: PRK02870 693745001531 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 693745001532 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 693745001533 Permutation of conserved domain; other site 693745001534 active site 693745001535 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 693745001536 recombination protein RecR; Region: recR; TIGR00615 693745001537 RecR protein; Region: RecR; pfam02132 693745001538 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 693745001539 putative active site [active] 693745001540 putative metal-binding site [ion binding]; other site 693745001541 tetramer interface [polypeptide binding]; other site 693745001542 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 693745001543 active site 1 [active] 693745001544 dimer interface [polypeptide binding]; other site 693745001545 hexamer interface [polypeptide binding]; other site 693745001546 active site 2 [active] 693745001547 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745001548 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 693745001549 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 693745001550 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 693745001551 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 693745001552 Autotransporter beta-domain; Region: Autotransporter; pfam03797 693745001553 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 693745001554 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 693745001555 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 693745001556 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 693745001557 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 693745001558 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 693745001559 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 693745001560 ATP-grasp domain; Region: ATP-grasp_4; cl17255 693745001561 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 693745001562 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 693745001563 ATP-grasp domain; Region: ATP-grasp_4; cl17255 693745001564 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 693745001565 IMP binding site; other site 693745001566 dimer interface [polypeptide binding]; other site 693745001567 interdomain contacts; other site 693745001568 partial ornithine binding site; other site 693745001569 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 693745001570 potential frameshift: common BLAST hit: gi|15611918|ref|NP_223569.1| putative IRON-regulated outer membrane protein 693745001571 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 693745001572 potential frameshift: common BLAST hit: gi|15611918|ref|NP_223569.1| putative IRON-regulated outer membrane protein 693745001573 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693745001574 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 693745001575 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 693745001576 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745001577 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745001578 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 693745001579 Part of AAA domain; Region: AAA_19; pfam13245 693745001580 Family description; Region: UvrD_C_2; pfam13538 693745001581 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 693745001582 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 693745001583 S-adenosylmethionine binding site [chemical binding]; other site 693745001584 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 693745001585 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 693745001586 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 693745001587 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 693745001588 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 693745001589 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 693745001590 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 693745001591 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 693745001592 Acetokinase family; Region: Acetate_kinase; cl17229 693745001593 Acetokinase family; Region: Acetate_kinase; cl17229 693745001594 Acetokinase family; Region: Acetate_kinase; cl17229 693745001595 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 693745001596 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 693745001597 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 693745001598 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 693745001599 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 693745001600 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 693745001601 Hydrogenase formation hypA family; Region: HypD; cl12072 693745001602 Hydrogenase formation hypA family; Region: HypD; cl12072 693745001603 potential protein location (conserved hypothetical protein [Helicobacter pylori B8]) that overlaps RNA (tRNA-Q) 693745001604 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745001605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 693745001606 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 693745001607 short chain dehydrogenase; Provisional; Region: PRK06914 693745001608 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 693745001609 NADP binding site [chemical binding]; other site 693745001610 active site 693745001611 steroid binding site; other site 693745001612 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 693745001613 ABC-ATPase subunit interface; other site 693745001614 dimer interface [polypeptide binding]; other site 693745001615 putative PBP binding regions; other site 693745001616 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 693745001617 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 693745001618 Walker A/P-loop; other site 693745001619 ATP binding site [chemical binding]; other site 693745001620 Q-loop/lid; other site 693745001621 ABC transporter signature motif; other site 693745001622 Walker B; other site 693745001623 D-loop; other site 693745001624 H-loop/switch region; other site 693745001625 potential frameshift: common BLAST hit: gi|254779494|ref|YP_003057599.1| Vacuolating cytotoxin; putative signal peptide 693745001626 Autotransporter beta-domain; Region: Autotransporter; pfam03797 693745001627 Vacuolating cyotoxin; Region: VacA; pfam02691 693745001628 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 693745001629 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 693745001630 active site 693745001631 HIGH motif; other site 693745001632 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 693745001633 KMSKS motif; other site 693745001634 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 693745001635 tRNA binding surface [nucleotide binding]; other site 693745001636 anticodon binding site; other site 693745001637 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 693745001638 MviN-like protein; Region: MVIN; pfam03023 693745001639 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 693745001640 RuvA N terminal domain; Region: RuvA_N; pfam01330 693745001641 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 693745001642 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 693745001643 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 693745001644 Cation transport protein; Region: TrkH; cl17365 693745001645 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 693745001646 TrkA-N domain; Region: TrkA_N; pfam02254 693745001647 TrkA-C domain; Region: TrkA_C; pfam02080 693745001648 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 693745001649 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 693745001650 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 693745001651 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 693745001652 Mg++ binding site [ion binding]; other site 693745001653 putative catalytic motif [active] 693745001654 putative substrate binding site [chemical binding]; other site 693745001655 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 693745001656 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693745001657 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693745001658 Protein of unknown function (DUF493); Region: DUF493; pfam04359 693745001659 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 693745001660 active site 693745001661 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 693745001662 Na2 binding site [ion binding]; other site 693745001663 putative substrate binding site 1 [chemical binding]; other site 693745001664 Na binding site 1 [ion binding]; other site 693745001665 putative substrate binding site 2 [chemical binding]; other site 693745001666 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 693745001667 Na2 binding site [ion binding]; other site 693745001668 putative substrate binding site 1 [chemical binding]; other site 693745001669 Na binding site 1 [ion binding]; other site 693745001670 putative substrate binding site 2 [chemical binding]; other site 693745001671 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 693745001672 dimerization interface [polypeptide binding]; other site 693745001673 substrate binding site [chemical binding]; other site 693745001674 active site 693745001675 calcium binding site [ion binding]; other site 693745001676 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 693745001677 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 693745001678 putative DNA binding surface [nucleotide binding]; other site 693745001679 dimer interface [polypeptide binding]; other site 693745001680 beta-clamp/translesion DNA polymerase binding surface; other site 693745001681 beta-clamp/clamp loader binding surface; other site 693745001682 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 693745001683 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 693745001684 Mg2+ binding site [ion binding]; other site 693745001685 G-X-G motif; other site 693745001686 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 693745001687 anchoring element; other site 693745001688 dimer interface [polypeptide binding]; other site 693745001689 ATP binding site [chemical binding]; other site 693745001690 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 693745001691 active site 693745001692 putative metal-binding site [ion binding]; other site 693745001693 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 693745001694 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 693745001695 R.Pab1 restriction endonuclease; Region: RE_R_Pab1; pfam09522 693745001696 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 693745001697 Peptidase family M23; Region: Peptidase_M23; pfam01551 693745001698 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 693745001699 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 693745001700 dimer interface [polypeptide binding]; other site 693745001701 ADP-ribose binding site [chemical binding]; other site 693745001702 active site 693745001703 nudix motif; other site 693745001704 metal binding site [ion binding]; metal-binding site 693745001705 FAD binding domain; Region: FAD_binding_4; pfam01565 693745001706 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 693745001707 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 693745001708 dihydrodipicolinate reductase; Region: dapB; TIGR00036 693745001709 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 693745001710 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 693745001711 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 693745001712 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 693745001713 prolyl-tRNA synthetase; Provisional; Region: PRK08661 693745001714 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 693745001715 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 693745001716 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 693745001717 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 693745001718 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 693745001719 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 693745001720 VirB7 interaction site; other site 693745001721 DC-EC Repeat; Region: CagY_M; pfam07337 693745001722 DC-EC Repeat; Region: CagY_M; pfam07337 693745001723 DC-EC Repeat; Region: CagY_M; pfam07337 693745001724 DC-EC Repeat; Region: CagY_M; pfam07337 693745001725 DC-EC Repeat; Region: CagY_M; pfam07337 693745001726 DC-EC Repeat; Region: CagY_M; pfam07337 693745001727 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 693745001728 CagZ; Region: CagZ; pfam09053 693745001729 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 693745001730 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 693745001731 ATP binding site [chemical binding]; other site 693745001732 Walker A motif; other site 693745001733 hexamer interface [polypeptide binding]; other site 693745001734 Walker B motif; other site 693745001735 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 693745001736 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 693745001737 Walker A motif; other site 693745001738 ATP binding site [chemical binding]; other site 693745001739 Walker B motif; other site 693745001740 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; cl11986 693745001741 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 693745001742 Sel1-like repeats; Region: SEL1; smart00671 693745001743 glutamine synthetase, type I; Region: GlnA; TIGR00653 693745001744 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 693745001745 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 693745001746 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745001747 Protein of unknown function DUF262; Region: DUF262; pfam03235 693745001748 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 693745001749 Uncharacterized conserved protein [Function unknown]; Region: COG3586 693745001750 ribosomal protein L9; Region: L9; TIGR00158 693745001751 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 693745001752 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 693745001753 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 693745001754 active site 693745001755 HslU subunit interaction site [polypeptide binding]; other site 693745001756 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 693745001757 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 693745001758 Walker A motif; other site 693745001759 ATP binding site [chemical binding]; other site 693745001760 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 693745001761 Walker B motif; other site 693745001762 arginine finger; other site 693745001763 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 693745001764 GTPase [General function prediction only]; Region: Era; COG1159 693745001765 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 693745001766 G1 box; other site 693745001767 GTP/Mg2+ binding site [chemical binding]; other site 693745001768 Switch I region; other site 693745001769 G2 box; other site 693745001770 Switch II region; other site 693745001771 G3 box; other site 693745001772 G4 box; other site 693745001773 G5 box; other site 693745001774 KH domain; Region: KH_2; pfam07650 693745001775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 693745001776 AAA domain; Region: AAA_12; pfam13087 693745001777 CagA exotoxin; Region: CagA; pfam03507 693745001778 AAA domain; Region: AAA_12; pfam13087 693745001779 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 693745001780 transcription termination factor Rho; Provisional; Region: rho; PRK09376 693745001781 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 693745001782 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 693745001783 RNA binding site [nucleotide binding]; other site 693745001784 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 693745001785 multimer interface [polypeptide binding]; other site 693745001786 Walker A motif; other site 693745001787 ATP binding site [chemical binding]; other site 693745001788 Walker B motif; other site 693745001789 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 693745001790 Predicted methyltransferases [General function prediction only]; Region: COG0313 693745001791 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 693745001792 putative SAM binding site [chemical binding]; other site 693745001793 putative homodimer interface [polypeptide binding]; other site 693745001794 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 693745001795 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 693745001796 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 693745001797 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 693745001798 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 693745001799 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 693745001800 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 693745001801 dimer interface [polypeptide binding]; other site 693745001802 active site 693745001803 acyl carrier protein; Provisional; Region: acpP; PRK00982 693745001804 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 693745001805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693745001806 NAD(P) binding site [chemical binding]; other site 693745001807 active site 693745001808 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 693745001809 Predicted membrane protein [Function unknown]; Region: COG3059 693745001810 diaminopimelate epimerase; Region: DapF; TIGR00652 693745001811 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 693745001812 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 693745001813 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 693745001814 Domain of unknown function DUF20; Region: UPF0118; pfam01594 693745001815 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 693745001816 FeS/SAM binding site; other site 693745001817 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 693745001818 GTP-binding protein YchF; Reviewed; Region: PRK09601 693745001819 YchF GTPase; Region: YchF; cd01900 693745001820 G1 box; other site 693745001821 GTP/Mg2+ binding site [chemical binding]; other site 693745001822 Switch I region; other site 693745001823 G2 box; other site 693745001824 Switch II region; other site 693745001825 G3 box; other site 693745001826 G4 box; other site 693745001827 G5 box; other site 693745001828 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 693745001829 multifunctional aminopeptidase A; Provisional; Region: PRK00913 693745001830 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 693745001831 interface (dimer of trimers) [polypeptide binding]; other site 693745001832 Substrate-binding/catalytic site; other site 693745001833 Zn-binding sites [ion binding]; other site 693745001834 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 693745001835 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693745001836 active site 693745001837 ribose 5-phosphate isomerase B; Region: rpiB; TIGR01120 693745001838 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 693745001839 Peptidase family M50; Region: Peptidase_M50; pfam02163 693745001840 active site 693745001841 putative substrate binding region [chemical binding]; other site 693745001842 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 693745001843 signal peptidase I; Provisional; Region: PRK10861 693745001844 Catalytic site [active] 693745001845 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 693745001846 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 693745001847 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 693745001848 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 693745001849 homodimer interface [polypeptide binding]; other site 693745001850 NADP binding site [chemical binding]; other site 693745001851 substrate binding site [chemical binding]; other site 693745001852 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 693745001853 Sulfatase; Region: Sulfatase; pfam00884 693745001854 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 693745001855 BNR repeat-like domain; Region: BNR_2; pfam13088 693745001856 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 693745001857 active site 693745001858 substrate binding pocket [chemical binding]; other site 693745001859 dimer interface [polypeptide binding]; other site 693745001860 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 693745001861 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 693745001862 flagellar motor switch protein; Validated; Region: PRK08433 693745001863 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 693745001864 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 693745001865 minor groove reading motif; other site 693745001866 helix-hairpin-helix signature motif; other site 693745001867 substrate binding pocket [chemical binding]; other site 693745001868 active site 693745001869 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 693745001870 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 693745001871 Protein of unknown function; Region: DUF3971; pfam13116 693745001872 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 693745001873 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 693745001874 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 693745001875 dimerization interface [polypeptide binding]; other site 693745001876 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 693745001877 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 693745001878 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 693745001879 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 693745001880 dimer interface [polypeptide binding]; other site 693745001881 PYR/PP interface [polypeptide binding]; other site 693745001882 TPP binding site [chemical binding]; other site 693745001883 substrate binding site [chemical binding]; other site 693745001884 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 693745001885 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 693745001886 TPP-binding site [chemical binding]; other site 693745001887 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 693745001888 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 693745001889 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 693745001890 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 693745001891 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 693745001892 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 693745001893 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 693745001894 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 693745001895 Transglycosylase; Region: Transgly; pfam00912 693745001896 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 693745001897 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 693745001898 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 693745001899 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693745001900 catalytic residue [active] 693745001901 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 693745001902 dimer interface [polypeptide binding]; other site 693745001903 putative CheW interface [polypeptide binding]; other site 693745001904 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 693745001905 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 693745001906 Walker A/P-loop; other site 693745001907 ATP binding site [chemical binding]; other site 693745001908 ABC transporter; Region: ABC_tran; pfam00005 693745001909 Q-loop/lid; other site 693745001910 ABC transporter signature motif; other site 693745001911 Walker B; other site 693745001912 D-loop; other site 693745001913 H-loop/switch region; other site 693745001914 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 693745001915 flagellin A; Reviewed; Region: PRK12584 693745001916 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 693745001917 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 693745001918 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 693745001919 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 693745001920 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 693745001921 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 693745001922 minor groove reading motif; other site 693745001923 helix-hairpin-helix signature motif; other site 693745001924 active site 693745001925 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 693745001926 substrate binding site [chemical binding]; other site 693745001927 active site 693745001928 Outer membrane efflux protein; Region: OEP; pfam02321 693745001929 Outer membrane efflux protein; Region: OEP; pfam02321 693745001930 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 693745001931 HlyD family secretion protein; Region: HlyD_3; pfam13437 693745001932 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 693745001933 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745001934 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 693745001935 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 693745001936 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 693745001937 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 693745001938 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 693745001939 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 693745001940 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 693745001941 Autotransporter beta-domain; Region: Autotransporter; pfam03797 693745001942 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 693745001943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693745001944 Walker A/P-loop; other site 693745001945 ATP binding site [chemical binding]; other site 693745001946 Q-loop/lid; other site 693745001947 ABC transporter signature motif; other site 693745001948 Walker B; other site 693745001949 D-loop; other site 693745001950 H-loop/switch region; other site 693745001951 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 693745001952 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 693745001953 nucleotide binding pocket [chemical binding]; other site 693745001954 K-X-D-G motif; other site 693745001955 catalytic site [active] 693745001956 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 693745001957 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 693745001958 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 693745001959 Dimer interface [polypeptide binding]; other site 693745001960 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 693745001961 Response regulator receiver domain; Region: Response_reg; pfam00072 693745001962 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 693745001963 active site 693745001964 phosphorylation site [posttranslational modification] 693745001965 intermolecular recognition site; other site 693745001966 dimerization interface [polypeptide binding]; other site 693745001967 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 693745001968 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 693745001969 dimer interface [polypeptide binding]; other site 693745001970 anticodon binding site; other site 693745001971 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 693745001972 homodimer interface [polypeptide binding]; other site 693745001973 motif 1; other site 693745001974 active site 693745001975 motif 2; other site 693745001976 GAD domain; Region: GAD; pfam02938 693745001977 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 693745001978 active site 693745001979 motif 3; other site 693745001980 adenylate kinase; Reviewed; Region: adk; PRK00279 693745001981 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 693745001982 AMP-binding site [chemical binding]; other site 693745001983 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 693745001984 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 693745001985 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 693745001986 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 693745001987 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 693745001988 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 693745001989 dimer interface [polypeptide binding]; other site 693745001990 substrate binding site [chemical binding]; other site 693745001991 metal binding sites [ion binding]; metal-binding site 693745001992 MutS2 family protein; Region: mutS2; TIGR01069 693745001993 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 693745001994 Walker A/P-loop; other site 693745001995 ATP binding site [chemical binding]; other site 693745001996 Q-loop/lid; other site 693745001997 ABC transporter signature motif; other site 693745001998 Walker B; other site 693745001999 D-loop; other site 693745002000 H-loop/switch region; other site 693745002001 Smr domain; Region: Smr; pfam01713 693745002002 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 693745002003 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 693745002004 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693745002005 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693745002006 hypothetical protein; Provisional; Region: PRK05839 693745002007 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 693745002008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693745002009 homodimer interface [polypeptide binding]; other site 693745002010 catalytic residue [active] 693745002011 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 693745002012 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 693745002013 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 693745002014 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 693745002015 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 693745002016 putative trimer interface [polypeptide binding]; other site 693745002017 putative CoA binding site [chemical binding]; other site 693745002018 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 693745002019 Sel1-like repeats; Region: SEL1; smart00671 693745002020 Sel1-like repeats; Region: SEL1; smart00671 693745002021 Sel1 repeat; Region: Sel1; cl02723 693745002022 Sel1-like repeats; Region: SEL1; smart00671 693745002023 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745002024 Protein of unknown function DUF262; Region: DUF262; pfam03235 693745002025 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 693745002026 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 693745002027 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 693745002028 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 693745002029 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 693745002030 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 693745002031 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 693745002032 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 693745002033 nickel binding site [ion binding]; other site 693745002034 putative substrate-binding site; other site 693745002035 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002036 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 693745002037 Ligand Binding Site [chemical binding]; other site 693745002038 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 693745002039 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 693745002040 active site 693745002041 NTP binding site [chemical binding]; other site 693745002042 metal binding triad [ion binding]; metal-binding site 693745002043 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 693745002044 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 693745002045 hydrophobic ligand binding site; other site 693745002046 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 693745002047 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 693745002048 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 693745002049 dimer interface [polypeptide binding]; other site 693745002050 FMN binding site [chemical binding]; other site 693745002051 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 693745002052 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693745002053 active site 693745002054 HIGH motif; other site 693745002055 nucleotide binding site [chemical binding]; other site 693745002056 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 693745002057 active site 693745002058 KMSKS motif; other site 693745002059 YGGT family; Region: YGGT; pfam02325 693745002060 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 693745002061 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 693745002062 N-acetyl-D-glucosamine binding site [chemical binding]; other site 693745002063 catalytic residue [active] 693745002064 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 693745002065 active site 693745002066 tetramer interface; other site 693745002067 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 693745002068 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 693745002069 hinge; other site 693745002070 active site 693745002071 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 693745002072 Aspartase; Region: Aspartase; cd01357 693745002073 active sites [active] 693745002074 tetramer interface [polypeptide binding]; other site 693745002075 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 693745002076 ligand binding site [chemical binding]; other site 693745002077 active site 693745002078 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 693745002079 phosphoserine phosphatase SerB; Region: serB; TIGR00338 693745002080 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 693745002081 motif II; other site 693745002082 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 693745002083 Ferritin-like domain; Region: Ferritin; pfam00210 693745002084 ferroxidase diiron center [ion binding]; other site 693745002085 hypothetical protein; Provisional; Region: PRK08444 693745002086 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 693745002087 FeS/SAM binding site; other site 693745002088 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 693745002089 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 693745002090 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 693745002091 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 693745002092 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 693745002093 Surface antigen; Region: Bac_surface_Ag; pfam01103 693745002094 hypothetical protein; Provisional; Region: PRK08445 693745002095 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 693745002096 FeS/SAM binding site; other site 693745002097 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 693745002098 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 693745002099 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 693745002100 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 693745002101 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 693745002102 GatB domain; Region: GatB_Yqey; smart00845 693745002103 SurA N-terminal domain; Region: SurA_N; pfam09312 693745002104 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 693745002105 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 693745002106 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 693745002107 RNA/DNA hybrid binding site [nucleotide binding]; other site 693745002108 active site 693745002109 ribonuclease III; Reviewed; Region: rnc; PRK00102 693745002110 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 693745002111 dimerization interface [polypeptide binding]; other site 693745002112 active site 693745002113 metal binding site [ion binding]; metal-binding site 693745002114 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 693745002115 dsRNA binding site [nucleotide binding]; other site 693745002116 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 693745002117 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 693745002118 Tetramer interface [polypeptide binding]; other site 693745002119 active site 693745002120 FMN-binding site [chemical binding]; other site 693745002121 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 693745002122 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 693745002123 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 693745002124 FeS/SAM binding site; other site 693745002125 HemN C-terminal domain; Region: HemN_C; pfam06969 693745002126 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 693745002127 Cysteine-rich domain; Region: CCG; pfam02754 693745002128 Cysteine-rich domain; Region: CCG; pfam02754 693745002129 Predicted helicase [General function prediction only]; Region: COG4889 693745002130 Restriction endonuclease; Region: Mrr_cat; pfam04471 693745002131 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 693745002132 ATP binding site [chemical binding]; other site 693745002133 putative Mg++ binding site [ion binding]; other site 693745002134 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 693745002135 nucleotide binding region [chemical binding]; other site 693745002136 ATP-binding site [chemical binding]; other site 693745002137 Predicted helicase [General function prediction only]; Region: COG4889 693745002138 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 693745002139 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002140 aspartate aminotransferase; Provisional; Region: PRK05764 693745002141 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 693745002142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693745002143 homodimer interface [polypeptide binding]; other site 693745002144 catalytic residue [active] 693745002145 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 693745002146 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 693745002147 active site 693745002148 DNA binding site [nucleotide binding] 693745002149 Int/Topo IB signature motif; other site 693745002150 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 693745002151 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 693745002152 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 693745002153 DNA binding site [nucleotide binding] 693745002154 active site 693745002155 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 693745002156 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 693745002157 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 693745002158 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 693745002159 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 693745002160 ATP cone domain; Region: ATP-cone; pfam03477 693745002161 Class I ribonucleotide reductase; Region: RNR_I; cd01679 693745002162 active site 693745002163 dimer interface [polypeptide binding]; other site 693745002164 catalytic residues [active] 693745002165 effector binding site; other site 693745002166 R2 peptide binding site; other site 693745002167 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 693745002168 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 693745002169 Substrate binding site; other site 693745002170 Mg++ binding site; other site 693745002171 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 693745002172 active site 693745002173 substrate binding site [chemical binding]; other site 693745002174 CoA binding site [chemical binding]; other site 693745002175 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 693745002176 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 693745002177 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 693745002178 N-terminal plug; other site 693745002179 ligand-binding site [chemical binding]; other site 693745002180 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 693745002181 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 693745002182 G1 box; other site 693745002183 GTP/Mg2+ binding site [chemical binding]; other site 693745002184 Switch I region; other site 693745002185 G2 box; other site 693745002186 G3 box; other site 693745002187 Switch II region; other site 693745002188 G4 box; other site 693745002189 G5 box; other site 693745002190 Nucleoside recognition; Region: Gate; pfam07670 693745002191 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 693745002192 Nucleoside recognition; Region: Gate; pfam07670 693745002193 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 693745002194 active site 693745002195 catalytic site [active] 693745002196 substrate binding site [chemical binding]; other site 693745002197 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 693745002198 putative acyltransferase; Provisional; Region: PRK05790 693745002199 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 693745002200 dimer interface [polypeptide binding]; other site 693745002201 active site 693745002202 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 693745002203 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 693745002204 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 693745002205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 693745002206 potential frameshift: common BLAST hit: gi|15611700|ref|NP_223351.1| putative hydantoin utilization 693745002207 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 693745002208 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 693745002209 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 693745002210 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 693745002211 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 693745002212 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 693745002213 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 693745002214 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 693745002215 DNA gyrase subunit A; Validated; Region: PRK05560 693745002216 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 693745002217 CAP-like domain; other site 693745002218 active site 693745002219 primary dimer interface [polypeptide binding]; other site 693745002220 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693745002221 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693745002222 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693745002223 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693745002224 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693745002225 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693745002226 Response regulator receiver domain; Region: Response_reg; pfam00072 693745002227 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 693745002228 active site 693745002229 phosphorylation site [posttranslational modification] 693745002230 intermolecular recognition site; other site 693745002231 dimerization interface [polypeptide binding]; other site 693745002232 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 693745002233 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 693745002234 Walker A motif; other site 693745002235 ATP binding site [chemical binding]; other site 693745002236 Walker B motif; other site 693745002237 arginine finger; other site 693745002238 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 693745002239 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 693745002240 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 693745002241 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 693745002242 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002243 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 693745002244 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 693745002245 Uncharacterized conserved protein [Function unknown]; Region: COG1912 693745002246 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002247 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 693745002248 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 693745002249 Fic family protein [Function unknown]; Region: COG3177 693745002250 Fic/DOC family; Region: Fic; pfam02661 693745002251 Fic family protein [Function unknown]; Region: COG3177 693745002252 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 693745002253 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 693745002254 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 693745002255 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 693745002256 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 693745002257 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 693745002258 Walker A/P-loop; other site 693745002259 ATP binding site [chemical binding]; other site 693745002260 Q-loop/lid; other site 693745002261 ABC transporter signature motif; other site 693745002262 Walker B; other site 693745002263 D-loop; other site 693745002264 H-loop/switch region; other site 693745002265 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 693745002266 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 693745002267 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 693745002268 Walker A motif; other site 693745002269 ATP binding site [chemical binding]; other site 693745002270 Walker B motif; other site 693745002271 arginine finger; other site 693745002272 L-lysine exporter; Region: 2a75; TIGR00948 693745002273 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 693745002274 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 693745002275 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002276 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 693745002277 active site 693745002278 homodimer interface [polypeptide binding]; other site 693745002279 homotetramer interface [polypeptide binding]; other site 693745002280 anaerobic c4-dicarboxylate membrane transporter family protein; Region: Dcu; TIGR00770 693745002281 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 693745002282 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002283 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 693745002284 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 693745002285 FMN binding site [chemical binding]; other site 693745002286 active site 693745002287 catalytic residues [active] 693745002288 substrate binding site [chemical binding]; other site 693745002289 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 693745002290 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 693745002291 Ligand Binding Site [chemical binding]; other site 693745002292 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 693745002293 potential frameshift: common BLAST hit: gi|254779290|ref|YP_003057395.1| putative LeoA protein 693745002294 potential frameshift: common BLAST hit: gi|254779290|ref|YP_003057395.1| putative LeoA protein 693745002295 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 693745002296 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 693745002297 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 693745002298 FeS/SAM binding site; other site 693745002299 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 693745002300 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693745002301 active site 693745002302 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 693745002303 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693745002304 catalytic residue [active] 693745002305 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 693745002306 tetramer interfaces [polypeptide binding]; other site 693745002307 binuclear metal-binding site [ion binding]; other site 693745002308 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 693745002309 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 693745002310 ATP-grasp domain; Region: ATP-grasp_4; cl17255 693745002311 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 693745002312 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 693745002313 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693745002314 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 693745002315 nucleotide binding site/active site [active] 693745002316 HIT family signature motif; other site 693745002317 catalytic residue [active] 693745002318 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 693745002319 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 693745002320 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693745002321 active site 693745002322 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 693745002323 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 693745002324 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 693745002325 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 693745002326 RNA binding surface [nucleotide binding]; other site 693745002327 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 693745002328 active site 693745002329 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 693745002330 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 693745002331 Interdomain contacts; other site 693745002332 Cytokine receptor motif; other site 693745002333 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 693745002334 Interdomain contacts; other site 693745002335 Cytokine receptor motif; other site 693745002336 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 693745002337 Interdomain contacts; other site 693745002338 Cytokine receptor motif; other site 693745002339 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 693745002340 S-adenosylmethionine binding site [chemical binding]; other site 693745002341 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 693745002342 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 693745002343 Walker A/P-loop; other site 693745002344 ATP binding site [chemical binding]; other site 693745002345 Q-loop/lid; other site 693745002346 ABC transporter signature motif; other site 693745002347 Walker B; other site 693745002348 D-loop; other site 693745002349 H-loop/switch region; other site 693745002350 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 693745002351 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 693745002352 Peptidase family M23; Region: Peptidase_M23; pfam01551 693745002353 flagellar protein FlaG; Provisional; Region: PRK08452 693745002354 flagellar capping protein; Validated; Region: fliD; PRK08453 693745002355 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 693745002356 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 693745002357 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 693745002358 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 693745002359 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 693745002360 putative ATP binding site [chemical binding]; other site 693745002361 putative substrate interface [chemical binding]; other site 693745002362 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 693745002363 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 693745002364 putative active site; other site 693745002365 catalytic triad [active] 693745002366 putative dimer interface [polypeptide binding]; other site 693745002367 Predicted permease [General function prediction only]; Region: COG2056 693745002368 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 693745002369 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 693745002370 putative efflux protein, MATE family; Region: matE; TIGR00797 693745002371 phosphodiesterase; Provisional; Region: PRK12704 693745002372 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cd00105 693745002373 nucleic acid binding region [nucleotide binding]; other site 693745002374 G-X-X-G motif; other site 693745002375 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 693745002376 Zn2+ binding site [ion binding]; other site 693745002377 Mg2+ binding site [ion binding]; other site 693745002378 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 693745002379 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 693745002380 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 693745002381 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 693745002382 Mu-like prophage protein [General function prediction only]; Region: COG3941 693745002383 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 693745002384 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 693745002385 FeS/SAM binding site; other site 693745002386 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 693745002387 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 693745002388 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 693745002389 GTP binding site; other site 693745002390 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 693745002391 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 693745002392 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 693745002393 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 693745002394 active site 693745002395 metal binding site [ion binding]; metal-binding site 693745002396 Nitronate monooxygenase; Region: NMO; pfam03060 693745002397 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 693745002398 FMN binding site [chemical binding]; other site 693745002399 substrate binding site [chemical binding]; other site 693745002400 putative catalytic residue [active] 693745002401 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 693745002402 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 693745002403 active site 693745002404 HIGH motif; other site 693745002405 dimer interface [polypeptide binding]; other site 693745002406 KMSKS motif; other site 693745002407 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 693745002408 RNA binding surface [nucleotide binding]; other site 693745002409 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 693745002410 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 693745002411 Zn2+ binding site [ion binding]; other site 693745002412 Mg2+ binding site [ion binding]; other site 693745002413 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 693745002414 synthetase active site [active] 693745002415 NTP binding site [chemical binding]; other site 693745002416 metal binding site [ion binding]; metal-binding site 693745002417 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 693745002418 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 693745002419 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 693745002420 putative nucleotide binding site [chemical binding]; other site 693745002421 uridine monophosphate binding site [chemical binding]; other site 693745002422 homohexameric interface [polypeptide binding]; other site 693745002423 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 693745002424 aconitate hydratase 2; Region: acnB; TIGR00117 693745002425 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 693745002426 substrate binding site [chemical binding]; other site 693745002427 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 693745002428 substrate binding site [chemical binding]; other site 693745002429 ligand binding site [chemical binding]; other site 693745002430 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 693745002431 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 693745002432 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 693745002433 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 693745002434 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 693745002435 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 693745002436 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 693745002437 nucleotide binding region [chemical binding]; other site 693745002438 ATP-binding site [chemical binding]; other site 693745002439 SEC-C motif; Region: SEC-C; pfam02810 693745002440 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 693745002441 FtsX-like permease family; Region: FtsX; pfam02687 693745002442 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 693745002443 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693745002444 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 693745002445 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693745002446 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; cl00207 693745002447 metal-binding site [ion binding] 693745002448 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 693745002449 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 693745002450 Soluble P-type ATPase [General function prediction only]; Region: COG4087 693745002451 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 693745002452 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 693745002453 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 693745002454 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 693745002455 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 693745002456 active site 693745002457 catalytic residues [active] 693745002458 metal binding site [ion binding]; metal-binding site 693745002459 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 693745002460 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 693745002461 oligomer interface [polypeptide binding]; other site 693745002462 active site residues [active] 693745002463 trigger factor; Provisional; Region: tig; PRK01490 693745002464 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 693745002465 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 693745002466 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002467 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 693745002468 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 693745002469 trimer interface [polypeptide binding]; other site 693745002470 dimer interface [polypeptide binding]; other site 693745002471 putative active site [active] 693745002472 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 693745002473 MPT binding site; other site 693745002474 trimer interface [polypeptide binding]; other site 693745002475 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 693745002476 MoaE homodimer interface [polypeptide binding]; other site 693745002477 MoaD interaction [polypeptide binding]; other site 693745002478 active site residues [active] 693745002479 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 693745002480 MoaE interaction surface [polypeptide binding]; other site 693745002481 MoeB interaction surface [polypeptide binding]; other site 693745002482 thiocarboxylated glycine; other site 693745002483 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 693745002484 dimerization interface [polypeptide binding]; other site 693745002485 active site 693745002486 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 693745002487 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 693745002488 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: ribB; TIGR00506 693745002489 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 693745002490 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 693745002491 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 693745002492 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 693745002493 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 693745002494 N-terminal plug; other site 693745002495 ligand-binding site [chemical binding]; other site 693745002496 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 693745002497 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 693745002498 RNA methyltransferase, RsmD family; Region: TIGR00095 693745002499 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 693745002500 Uncharacterized conserved protein [Function unknown]; Region: COG1565 693745002501 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 693745002502 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 693745002503 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 693745002504 ATP binding site [chemical binding]; other site 693745002505 substrate interface [chemical binding]; other site 693745002506 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 693745002507 flagellar motor protein MotA; Validated; Region: PRK08456 693745002508 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 693745002509 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693745002510 ligand binding site [chemical binding]; other site 693745002511 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 693745002512 dimer interface [polypeptide binding]; other site 693745002513 conserved gate region; other site 693745002514 ABC-ATPase subunit interface; other site 693745002515 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 693745002516 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 693745002517 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693745002518 Walker A/P-loop; other site 693745002519 ATP binding site [chemical binding]; other site 693745002520 Q-loop/lid; other site 693745002521 ABC transporter signature motif; other site 693745002522 Walker B; other site 693745002523 D-loop; other site 693745002524 H-loop/switch region; other site 693745002525 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 693745002526 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 693745002527 GIY-YIG motif/motif A; other site 693745002528 active site 693745002529 catalytic site [active] 693745002530 putative DNA binding site [nucleotide binding]; other site 693745002531 metal binding site [ion binding]; metal-binding site 693745002532 UvrB/uvrC motif; Region: UVR; pfam02151 693745002533 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 693745002534 homoserine dehydrogenase; Provisional; Region: PRK06349 693745002535 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 693745002536 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 693745002537 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 693745002538 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 693745002539 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 693745002540 catalytic residues [active] 693745002541 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 693745002542 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 693745002543 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693745002544 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 693745002545 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 693745002546 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 693745002547 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 693745002548 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 693745002549 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 693745002550 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 693745002551 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 693745002552 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 693745002553 active site 693745002554 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 693745002555 indole acetimide hydrolase; Validated; Region: PRK07488 693745002556 dephospho-CoA kinase; Region: TIGR00152 693745002557 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 693745002558 CoA-binding site [chemical binding]; other site 693745002559 ATP-binding [chemical binding]; other site 693745002560 spermidine synthase; Provisional; Region: speE; PRK00536 693745002561 spermidine synthase; Provisional; Region: PRK00811 693745002562 GTP-binding protein Der; Reviewed; Region: PRK00093 693745002563 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 693745002564 G1 box; other site 693745002565 GTP/Mg2+ binding site [chemical binding]; other site 693745002566 Switch I region; other site 693745002567 G2 box; other site 693745002568 Switch II region; other site 693745002569 G3 box; other site 693745002570 G4 box; other site 693745002571 G5 box; other site 693745002572 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 693745002573 G1 box; other site 693745002574 GTP/Mg2+ binding site [chemical binding]; other site 693745002575 Switch I region; other site 693745002576 G2 box; other site 693745002577 G3 box; other site 693745002578 Switch II region; other site 693745002579 G4 box; other site 693745002580 G5 box; other site 693745002581 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 693745002582 IHF dimer interface [polypeptide binding]; other site 693745002583 IHF - DNA interface [nucleotide binding]; other site 693745002584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 693745002585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 693745002586 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 693745002587 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 693745002588 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 693745002589 NAD(P) binding site [chemical binding]; other site 693745002590 homodimer interface [polypeptide binding]; other site 693745002591 substrate binding site [chemical binding]; other site 693745002592 active site 693745002593 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 693745002594 Flavoprotein; Region: Flavoprotein; pfam02441 693745002595 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 693745002596 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 693745002597 thiamine phosphate binding site [chemical binding]; other site 693745002598 active site 693745002599 pyrophosphate binding site [ion binding]; other site 693745002600 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 693745002601 dimer interface [polypeptide binding]; other site 693745002602 substrate binding site [chemical binding]; other site 693745002603 ATP binding site [chemical binding]; other site 693745002604 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 693745002605 substrate binding site [chemical binding]; other site 693745002606 multimerization interface [polypeptide binding]; other site 693745002607 ATP binding site [chemical binding]; other site 693745002608 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 693745002609 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 693745002610 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 693745002611 ATP binding site [chemical binding]; other site 693745002612 putative Mg++ binding site [ion binding]; other site 693745002613 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693745002614 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 693745002615 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 693745002616 HsdM N-terminal domain; Region: HsdM_N; pfam12161 693745002617 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 693745002618 S-adenosylmethionine binding site [chemical binding]; other site 693745002619 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 693745002620 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 693745002621 cofactor binding site; other site 693745002622 DNA binding site [nucleotide binding] 693745002623 substrate interaction site [chemical binding]; other site 693745002624 HaeIII restriction endonuclease; Region: RE_HaeIII; pfam09556 693745002625 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 693745002626 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 693745002627 active site 693745002628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2958 693745002629 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 693745002630 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693745002631 Walker A/P-loop; other site 693745002632 ATP binding site [chemical binding]; other site 693745002633 Q-loop/lid; other site 693745002634 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 693745002635 ABC transporter; Region: ABC_tran_2; pfam12848 693745002636 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 693745002637 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 693745002638 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 693745002639 active site 693745002640 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 693745002641 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 693745002642 dimer interface [polypeptide binding]; other site 693745002643 active site 693745002644 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 693745002645 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 693745002646 putative ribose interaction site [chemical binding]; other site 693745002647 putative ADP binding site [chemical binding]; other site 693745002648 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 693745002649 active site 693745002650 nucleotide binding site [chemical binding]; other site 693745002651 HIGH motif; other site 693745002652 KMSKS motif; other site 693745002653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693745002654 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 693745002655 NAD(P) binding site [chemical binding]; other site 693745002656 active site 693745002657 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 693745002658 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 693745002659 active site 693745002660 motif I; other site 693745002661 motif II; other site 693745002662 Uncharacterized conserved protein [Function unknown]; Region: COG2836 693745002663 pantothenate kinase; Reviewed; Region: PRK13333 693745002664 PQQ-like domain; Region: PQQ_2; pfam13360 693745002665 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 693745002666 trimer interface [polypeptide binding]; other site 693745002667 active site 693745002668 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 693745002669 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 693745002670 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 693745002671 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 693745002672 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 693745002673 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 693745002674 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 693745002675 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 693745002676 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 693745002677 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 693745002678 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 693745002679 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 693745002680 potential frameshift: common BLAST hit: gi|15645490|ref|NP_207665.1| CDP-diacylglycerol pyrophosphatase 693745002681 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 693745002682 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 693745002683 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 693745002684 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 693745002685 PhnA protein; Region: PhnA; pfam03831 693745002686 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 693745002687 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 693745002688 tetramer interface [polypeptide binding]; other site 693745002689 heme binding pocket [chemical binding]; other site 693745002690 NADPH binding site [chemical binding]; other site 693745002691 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 693745002692 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 693745002693 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 693745002694 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 693745002695 active site 693745002696 putative DNA-binding cleft [nucleotide binding]; other site 693745002697 dimer interface [polypeptide binding]; other site 693745002698 Uncharacterized conserved protein [Function unknown]; Region: COG1432 693745002699 LabA_like proteins; Region: LabA_like; cd06167 693745002700 putative metal binding site [ion binding]; other site 693745002701 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 693745002702 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 693745002703 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 693745002704 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 693745002705 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 693745002706 putative heme binding pocket [chemical binding]; other site 693745002707 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 693745002708 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 693745002709 cofactor binding site; other site 693745002710 DNA binding site [nucleotide binding] 693745002711 substrate interaction site [chemical binding]; other site 693745002712 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 693745002713 Catalytic GIY-YIG domain of coliphage T4 non-specific endonuclease II, type II restriction endonuclease R.Hpy188I, and similar proteins; Region: GIY-YIG_EndoII_Hpy188I_like; cd10436 693745002714 GIY-YIG motif/motif A; other site 693745002715 DNA binding site [nucleotide binding] 693745002716 active site 693745002717 catalytic site [active] 693745002718 metal binding site [ion binding]; metal-binding site 693745002719 potential frameshift: common BLAST hit: gi|108562883|ref|YP_627199.1| type II adenine specific DNA methyltransferase 693745002720 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 693745002721 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 693745002722 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 693745002723 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 693745002724 G1 box; other site 693745002725 putative GEF interaction site [polypeptide binding]; other site 693745002726 GTP/Mg2+ binding site [chemical binding]; other site 693745002727 Switch I region; other site 693745002728 G2 box; other site 693745002729 G3 box; other site 693745002730 Switch II region; other site 693745002731 G4 box; other site 693745002732 G5 box; other site 693745002733 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 693745002734 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 693745002735 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 693745002736 Methyltransferase domain; Region: Methyltransf_26; pfam13659 693745002737 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 693745002738 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 693745002739 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002740 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 693745002741 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 693745002742 active site 693745002743 HIGH motif; other site 693745002744 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 693745002745 active site 693745002746 KMSKS motif; other site 693745002747 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693745002748 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 693745002749 Walker A/P-loop; other site 693745002750 ATP binding site [chemical binding]; other site 693745002751 Q-loop/lid; other site 693745002752 ABC transporter signature motif; other site 693745002753 Walker B; other site 693745002754 D-loop; other site 693745002755 H-loop/switch region; other site 693745002756 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 693745002757 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 693745002758 dimer interface [polypeptide binding]; other site 693745002759 conserved gate region; other site 693745002760 putative PBP binding loops; other site 693745002761 ABC-ATPase subunit interface; other site 693745002762 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 693745002763 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 693745002764 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002765 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 693745002766 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 693745002767 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 693745002768 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 693745002769 active site 693745002770 Zn binding site [ion binding]; other site 693745002771 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 693745002772 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 693745002773 putative metal binding site [ion binding]; other site 693745002774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 693745002775 potential frameshift: common BLAST hit: gi|15645092|ref|NP_207262.1| type I restriction enzyme R protein (hsdR) 693745002776 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 693745002777 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 693745002778 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 693745002779 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 693745002780 ATP binding site [chemical binding]; other site 693745002781 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 693745002782 putative Mg++ binding site [ion binding]; other site 693745002783 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 693745002784 Methyltransferase domain; Region: Methyltransf_26; pfam13659 693745002785 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693745002786 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 693745002787 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693745002788 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 693745002789 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 693745002790 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 693745002791 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 693745002792 putative domain interface [polypeptide binding]; other site 693745002793 putative active site [active] 693745002794 catalytic site [active] 693745002795 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 693745002796 putative active site [active] 693745002797 putative domain interface [polypeptide binding]; other site 693745002798 catalytic site [active] 693745002799 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 693745002800 Dihydroorotate dehydrogenase (DHOD) class 2. 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 nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 693745002801 quinone interaction residues [chemical binding]; other site 693745002802 active site 693745002803 catalytic residues [active] 693745002804 FMN binding site [chemical binding]; other site 693745002805 substrate binding site [chemical binding]; other site 693745002806 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 693745002807 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 693745002808 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 693745002809 dihydrodipicolinate synthase; Region: dapA; TIGR00674 693745002810 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 693745002811 dimer interface [polypeptide binding]; other site 693745002812 active site 693745002813 catalytic residue [active] 693745002814 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 693745002815 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 693745002816 putative NAD(P) binding site [chemical binding]; other site 693745002817 active site 693745002818 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 693745002819 S-methylmethionine transporter; Provisional; Region: PRK11387 693745002820 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 693745002821 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 693745002822 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 693745002823 protein binding site [polypeptide binding]; other site 693745002824 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 693745002825 protein binding site [polypeptide binding]; other site 693745002826 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 693745002827 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 693745002828 substrate binding site; other site 693745002829 dimer interface; other site 693745002830 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 693745002831 homotrimer interaction site [polypeptide binding]; other site 693745002832 zinc binding site [ion binding]; other site 693745002833 CDP-binding sites; other site 693745002834 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 693745002835 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 693745002836 active site 693745002837 dimerization interface [polypeptide binding]; other site 693745002838 potential frameshift: common BLAST hit: gi|210134620|ref|YP_002301059.1| DNA-polymerase I-like 5'-3' exonuclease 693745002839 5'-3' exonuclease; Provisional; Region: PRK14976 693745002840 5'-3' exonuclease; Provisional; Region: PRK14976 693745002841 Helix-hairpin-helix class 2 (Pol1 family) motifs; Region: HhH2; smart00279 693745002842 DNA binding site [nucleotide binding] 693745002843 metal binding site [ion binding]; metal-binding site 693745002844 chaperone protein DnaJ; Provisional; Region: PRK14299 693745002845 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 693745002846 HSP70 interaction site [polypeptide binding]; other site 693745002847 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 693745002848 substrate binding site [polypeptide binding]; other site 693745002849 dimer interface [polypeptide binding]; other site 693745002850 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 693745002851 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 693745002852 DNA binding residues [nucleotide binding] 693745002853 putative dimer interface [polypeptide binding]; other site 693745002854 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 693745002855 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 693745002856 Walker A motif; other site 693745002857 ATP binding site [chemical binding]; other site 693745002858 Walker B motif; other site 693745002859 arginine finger; other site 693745002860 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 693745002861 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 693745002862 metal binding site 2 [ion binding]; metal-binding site 693745002863 putative DNA binding helix; other site 693745002864 metal binding site 1 [ion binding]; metal-binding site 693745002865 dimer interface [polypeptide binding]; other site 693745002866 structural Zn2+ binding site [ion binding]; other site 693745002867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 693745002868 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 693745002869 flagellar motor switch protein FliY; Validated; Region: PRK08432 693745002870 flagellar motor switch protein FliN; Region: fliN; TIGR02480 693745002871 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 693745002872 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 693745002873 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 693745002874 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693745002875 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 693745002876 DNA binding residues [nucleotide binding] 693745002877 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 693745002878 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 693745002879 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 693745002880 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 693745002881 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 693745002882 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 693745002883 catalytic center binding site [active] 693745002884 ATP binding site [chemical binding]; other site 693745002885 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 693745002886 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 693745002887 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 693745002888 active site 693745002889 Dehydroquinase class II; Region: DHquinase_II; pfam01220 693745002890 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 693745002891 trimer interface [polypeptide binding]; other site 693745002892 active site 693745002893 dimer interface [polypeptide binding]; other site 693745002894 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 693745002895 O-Antigen ligase; Region: Wzy_C; pfam04932 693745002896 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 693745002897 16S/18S rRNA binding site [nucleotide binding]; other site 693745002898 S13e-L30e interaction site [polypeptide binding]; other site 693745002899 25S rRNA binding site [nucleotide binding]; other site 693745002900 flagellar biosynthesis protein FlhA; Region: FlhA; TIGR01398 693745002901 FHIPEP family; Region: FHIPEP; pfam00771 693745002902 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 693745002903 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 693745002904 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 693745002905 active site 693745002906 intermolecular recognition site; other site 693745002907 dimerization interface [polypeptide binding]; other site 693745002908 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 693745002909 DNA binding site [nucleotide binding] 693745002910 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 693745002911 putative active site [active] 693745002912 putative metal binding site [ion binding]; other site 693745002913 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 693745002914 acetyl-CoA synthetase; Provisional; Region: PRK00174 693745002915 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 693745002916 active site 693745002917 CoA binding site [chemical binding]; other site 693745002918 acyl-activating enzyme (AAE) consensus motif; other site 693745002919 AMP binding site [chemical binding]; other site 693745002920 acetate binding site [chemical binding]; other site 693745002921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 693745002922 Sm and related proteins; Region: Sm_like; cl00259 693745002923 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 693745002924 putative oligomer interface [polypeptide binding]; other site 693745002925 putative RNA binding site [nucleotide binding]; other site 693745002926 Ribosome-binding factor A; Region: RBFA; cl00542 693745002927 translation initiation factor IF-2; Region: IF-2; TIGR00487 693745002928 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 693745002929 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 693745002930 G1 box; other site 693745002931 putative GEF interaction site [polypeptide binding]; other site 693745002932 GTP/Mg2+ binding site [chemical binding]; other site 693745002933 Switch I region; other site 693745002934 G2 box; other site 693745002935 G3 box; other site 693745002936 Switch II region; other site 693745002937 G4 box; other site 693745002938 G5 box; other site 693745002939 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 693745002940 Translation-initiation factor 2; Region: IF-2; pfam11987 693745002941 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 693745002942 potential protein location (conserved hypothetical protein) that overlaps protein (hypothetical protein predicted by Glimmer/Critica) 693745002943 potential protein location (hypothetical protein predicted by Glimmer/Critica) that overlaps protein (conserved hypothetical protein) 693745002944 homoserine kinase; Region: thrB; TIGR00191 693745002945 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 693745002946 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 693745002947 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 693745002948 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 693745002949 septum formation inhibitor; Reviewed; Region: minC; PRK00556 693745002950 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 693745002951 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 693745002952 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002953 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002954 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 693745002955 oligomerization interface [polypeptide binding]; other site 693745002956 active site 693745002957 metal binding site [ion binding]; metal-binding site 693745002958 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 693745002959 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 693745002960 Walker A motif; other site 693745002961 ATP binding site [chemical binding]; other site 693745002962 Walker B motif; other site 693745002963 arginine finger; other site 693745002964 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 693745002965 sec-independent translocase; Provisional; Region: PRK04098 693745002966 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 693745002967 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 693745002968 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 693745002969 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 693745002970 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 693745002971 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745002972 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 693745002973 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 693745002974 active site 693745002975 phosphorylation site [posttranslational modification] 693745002976 intermolecular recognition site; other site 693745002977 dimerization interface [polypeptide binding]; other site 693745002978 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 693745002979 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 693745002980 S-adenosylmethionine binding site [chemical binding]; other site 693745002981 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 693745002982 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 693745002983 Walker A motif; other site 693745002984 ATP binding site [chemical binding]; other site 693745002985 Walker B motif; other site 693745002986 arginine finger; other site 693745002987 Peptidase family M41; Region: Peptidase_M41; pfam01434 693745002988 potential protein location (conserved hypothetical protein) that overlaps protein (hypothetical protein predicted by Glimmer/Critica) 693745002989 potential protein location (hypothetical protein predicted by Glimmer/Critica) that overlaps protein (conserved hypothetical protein) 693745002990 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 693745002991 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 693745002992 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 693745002993 metal-binding site [ion binding] 693745002994 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 693745002995 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 693745002996 Soluble P-type ATPase [General function prediction only]; Region: COG4087 693745002997 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 693745002998 metal-binding site [ion binding] 693745002999 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 693745003000 active site 693745003001 Zn binding site [ion binding]; other site 693745003002 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 693745003003 Predicted ATPases [General function prediction only]; Region: COG1106 693745003004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693745003005 Walker A/P-loop; other site 693745003006 ATP binding site [chemical binding]; other site 693745003007 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 693745003008 Restriction endonuclease; Region: Mrr_cat; pfam04471 693745003009 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 693745003010 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 693745003011 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 693745003012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693745003013 Walker A/P-loop; other site 693745003014 ATP binding site [chemical binding]; other site 693745003015 Q-loop/lid; other site 693745003016 ABC transporter signature motif; other site 693745003017 Walker B; other site 693745003018 D-loop; other site 693745003019 H-loop/switch region; other site 693745003020 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 693745003021 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 693745003022 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 693745003023 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 693745003024 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 693745003025 hemolysin TlyA family protein; Region: tly; TIGR00478 693745003026 RNA binding surface [nucleotide binding]; other site 693745003027 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 693745003028 S-adenosylmethionine binding site [chemical binding]; other site 693745003029 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 693745003030 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 693745003031 active site 693745003032 Riboflavin kinase; Region: Flavokinase; smart00904 693745003033 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 693745003034 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 693745003035 TPP-binding site [chemical binding]; other site 693745003036 dimer interface [polypeptide binding]; other site 693745003037 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 693745003038 PYR/PP interface [polypeptide binding]; other site 693745003039 dimer interface [polypeptide binding]; other site 693745003040 TPP binding site [chemical binding]; other site 693745003041 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 693745003042 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 693745003043 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 693745003044 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 693745003045 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 693745003046 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 693745003047 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 693745003048 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 693745003049 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 693745003050 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 693745003051 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 693745003052 GTP-binding protein LepA; Provisional; Region: PRK05433 693745003053 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 693745003054 G1 box; other site 693745003055 putative GEF interaction site [polypeptide binding]; other site 693745003056 GTP/Mg2+ binding site [chemical binding]; other site 693745003057 Switch I region; other site 693745003058 G2 box; other site 693745003059 G3 box; other site 693745003060 Switch II region; other site 693745003061 G4 box; other site 693745003062 G5 box; other site 693745003063 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 693745003064 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 693745003065 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 693745003066 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 693745003067 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 693745003068 TPP-binding site; other site 693745003069 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 693745003070 PYR/PP interface [polypeptide binding]; other site 693745003071 dimer interface [polypeptide binding]; other site 693745003072 TPP binding site [chemical binding]; other site 693745003073 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 693745003074 flagellar assembly protein H; Validated; Region: fliH; PRK06669 693745003075 Flagellar assembly protein FliH; Region: FliH; pfam02108 693745003076 flagellar motor switch protein FliG; Region: fliG; TIGR00207 693745003077 FliG C-terminal domain; Region: FliG_C; pfam01706 693745003078 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 693745003079 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 693745003080 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 693745003081 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 693745003082 CTP synthetase; Validated; Region: pyrG; PRK05380 693745003083 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 693745003084 Catalytic site [active] 693745003085 active site 693745003086 UTP binding site [chemical binding]; other site 693745003087 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 693745003088 active site 693745003089 putative oxyanion hole; other site 693745003090 catalytic triad [active] 693745003091 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 693745003092 DHH family; Region: DHH; pfam01368 693745003093 DHHA1 domain; Region: DHHA1; pfam02272 693745003094 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 693745003095 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 693745003096 active site 693745003097 chlorohydrolase; Provisional; Region: PRK07213 693745003098 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 693745003099 Sel1-like repeats; Region: SEL1; smart00671 693745003100 Sel1 repeat; Region: Sel1; cl02723 693745003101 Sel1-like repeats; Region: SEL1; smart00671 693745003102 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 693745003103 DNA protecting protein DprA; Region: dprA; TIGR00732 693745003104 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 693745003105 cell division topological specificity factor MinE; Region: minE; TIGR01215 693745003106 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 693745003107 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 693745003108 Switch I; other site 693745003109 Switch II; other site 693745003110 ketol-acid reductoisomerase; Provisional; Region: PRK05479 693745003111 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 693745003112 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 693745003113 NAD synthetase; Provisional; Region: PRK13980 693745003114 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 693745003115 homodimer interface [polypeptide binding]; other site 693745003116 NAD binding pocket [chemical binding]; other site 693745003117 ATP binding pocket [chemical binding]; other site 693745003118 Mg binding site [ion binding]; other site 693745003119 active-site loop [active] 693745003120 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 693745003121 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 693745003122 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 693745003123 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 693745003124 ligand binding site; other site 693745003125 tetramer interface; other site 693745003126 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 693745003127 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 693745003128 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745003129 nuclease NucT; Provisional; Region: PRK13912 693745003130 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 693745003131 putative active site [active] 693745003132 catalytic site [active] 693745003133 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 693745003134 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 693745003135 catalytic site [active] 693745003136 G-X2-G-X-G-K; other site 693745003137 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 693745003138 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 693745003139 arginyl-tRNA synthetase; Region: argS; TIGR00456 693745003140 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 693745003141 active site 693745003142 HIGH motif; other site 693745003143 KMSK motif region; other site 693745003144 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 693745003145 tRNA binding surface [nucleotide binding]; other site 693745003146 anticodon binding site; other site 693745003147 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 693745003148 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 693745003149 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 693745003150 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 693745003151 Major Facilitator Superfamily; Region: MFS_1; pfam07690 693745003152 putative substrate translocation pore; other site 693745003153 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 693745003154 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 693745003155 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 693745003156 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 693745003157 active site 693745003158 catalytic site [active] 693745003159 Zn binding site [ion binding]; other site 693745003160 tetramer interface [polypeptide binding]; other site 693745003161 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 693745003162 Predicted amidohydrolase [General function prediction only]; Region: COG0388 693745003163 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 693745003164 active site 693745003165 catalytic triad [active] 693745003166 dimer interface [polypeptide binding]; other site 693745003167 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 693745003168 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 693745003169 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 693745003170 inhibitor-cofactor binding pocket; inhibition site 693745003171 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693745003172 catalytic residue [active] 693745003173 Alginate lyase; Region: Alginate_lyase; pfam05426 693745003174 GTPase CgtA; Reviewed; Region: obgE; PRK12299 693745003175 GTP1/OBG; Region: GTP1_OBG; pfam01018 693745003176 Obg GTPase; Region: Obg; cd01898 693745003177 G1 box; other site 693745003178 GTP/Mg2+ binding site [chemical binding]; other site 693745003179 Switch I region; other site 693745003180 G2 box; other site 693745003181 G3 box; other site 693745003182 Switch II region; other site 693745003183 G4 box; other site 693745003184 G5 box; other site 693745003185 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 693745003186 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 693745003187 Walker A/P-loop; other site 693745003188 ATP binding site [chemical binding]; other site 693745003189 Q-loop/lid; other site 693745003190 ABC transporter signature motif; other site 693745003191 Walker B; other site 693745003192 D-loop; other site 693745003193 H-loop/switch region; other site 693745003194 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 693745003195 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 693745003196 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 693745003197 Walker A/P-loop; other site 693745003198 ATP binding site [chemical binding]; other site 693745003199 Q-loop/lid; other site 693745003200 ABC transporter signature motif; other site 693745003201 Walker B; other site 693745003202 D-loop; other site 693745003203 H-loop/switch region; other site 693745003204 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 693745003205 dipeptide transporter; Provisional; Region: PRK10913 693745003206 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 693745003207 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 693745003208 dimer interface [polypeptide binding]; other site 693745003209 conserved gate region; other site 693745003210 putative PBP binding loops; other site 693745003211 ABC-ATPase subunit interface; other site 693745003212 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 693745003213 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 693745003214 dimer interface [polypeptide binding]; other site 693745003215 conserved gate region; other site 693745003216 putative PBP binding loops; other site 693745003217 ABC-ATPase subunit interface; other site 693745003218 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 693745003219 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 693745003220 peptide binding site [polypeptide binding]; other site 693745003221 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 693745003222 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 693745003223 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 693745003224 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 693745003225 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 693745003226 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 693745003227 multimer interface [polypeptide binding]; other site 693745003228 active site 693745003229 catalytic triad [active] 693745003230 dimer interface [polypeptide binding]; other site 693745003231 aminodeoxychorismate synthase; Provisional; Region: PRK07508 693745003232 chorismate binding enzyme; Region: Chorismate_bind; cl10555 693745003233 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 693745003234 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 693745003235 substrate-cofactor binding pocket; other site 693745003236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693745003237 catalytic residue [active] 693745003238 Uncharacterized conserved protein [Function unknown]; Region: COG4866 693745003239 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 693745003240 diaminopimelate decarboxylase; Region: lysA; TIGR01048 693745003241 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 693745003242 active site 693745003243 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693745003244 substrate binding site [chemical binding]; other site 693745003245 catalytic residues [active] 693745003246 dimer interface [polypeptide binding]; other site 693745003247 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 693745003248 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 693745003249 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 693745003250 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 693745003251 Autotransporter beta-domain; Region: Autotransporter; pfam03797 693745003252 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 693745003253 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 693745003254 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 693745003255 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 693745003256 Walker A motif; other site 693745003257 ATP binding site [chemical binding]; other site 693745003258 Walker B motif; other site 693745003259 arginine finger; other site 693745003260 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 693745003261 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 693745003262 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 693745003263 FeS/SAM binding site; other site 693745003264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 693745003265 Mechanosensitive ion channel; Region: MS_channel; pfam00924 693745003266 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 693745003267 active site 693745003268 dimer interface [polypeptide binding]; other site 693745003269 metal binding site [ion binding]; metal-binding site 693745003270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 693745003271 TrkA-C domain; Region: TrkA_C; pfam02080 693745003272 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 693745003273 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 693745003274 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 693745003275 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 693745003276 putative acyl-acceptor binding pocket; other site 693745003277 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 693745003278 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 693745003279 putative active site [active] 693745003280 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 693745003281 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 693745003282 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 693745003283 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 693745003284 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 693745003285 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 693745003286 putative acyl-acceptor binding pocket; other site 693745003287 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 693745003288 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 693745003289 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 693745003290 FeS/SAM binding site; other site 693745003291 chlorohydrolase; Provisional; Region: PRK08418 693745003292 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_D; cd01312 693745003293 active site 693745003294 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 693745003295 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 693745003296 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 693745003297 active site 693745003298 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 693745003299 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 693745003300 Clp amino terminal domain; Region: Clp_N; pfam02861 693745003301 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 693745003302 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 693745003303 Walker A motif; other site 693745003304 ATP binding site [chemical binding]; other site 693745003305 Walker B motif; other site 693745003306 arginine finger; other site 693745003307 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 693745003308 Walker A motif; other site 693745003309 ATP binding site [chemical binding]; other site 693745003310 Walker B motif; other site 693745003311 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 693745003312 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 693745003313 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745003314 potential frameshift: common BLAST hit: gi|208434208|ref|YP_002265874.1| type II DNA modification enzyme 693745003315 methionine aminotransferase; Validated; Region: PRK09082 693745003316 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 693745003317 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745003318 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745003319 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 693745003320 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 693745003321 generic binding surface II; other site 693745003322 generic binding surface I; other site 693745003323 RIP metalloprotease RseP; Region: TIGR00054 693745003324 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 693745003325 active site 693745003326 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 693745003327 Uncharacterized conserved protein [Function unknown]; Region: COG3334 693745003328 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 693745003329 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 693745003330 GDP-binding site [chemical binding]; other site 693745003331 ACT binding site; other site 693745003332 IMP binding site; other site 693745003333 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745003334 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745003335 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 693745003336 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 693745003337 dimer interface [polypeptide binding]; other site 693745003338 conserved gate region; other site 693745003339 putative PBP binding loops; other site 693745003340 ABC-ATPase subunit interface; other site 693745003341 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 693745003342 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 693745003343 Walker A/P-loop; other site 693745003344 ATP binding site [chemical binding]; other site 693745003345 Q-loop/lid; other site 693745003346 ABC transporter signature motif; other site 693745003347 Walker B; other site 693745003348 D-loop; other site 693745003349 H-loop/switch region; other site 693745003350 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 693745003351 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 693745003352 Walker A/P-loop; other site 693745003353 ATP binding site [chemical binding]; other site 693745003354 Q-loop/lid; other site 693745003355 ABC transporter signature motif; other site 693745003356 Walker B; other site 693745003357 D-loop; other site 693745003358 H-loop/switch region; other site 693745003359 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 693745003360 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 693745003361 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 693745003362 SPFH domain / Band 7 family; Region: Band_7; pfam01145 693745003363 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 693745003364 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 693745003365 ATP binding site [chemical binding]; other site 693745003366 Mg++ binding site [ion binding]; other site 693745003367 motif III; other site 693745003368 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 693745003369 nucleotide binding region [chemical binding]; other site 693745003370 ATP-binding site [chemical binding]; other site 693745003371 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 693745003372 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 693745003373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 693745003374 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 693745003375 dimer interface [polypeptide binding]; other site 693745003376 phosphorylation site [posttranslational modification] 693745003377 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 693745003378 ATP binding site [chemical binding]; other site 693745003379 Mg2+ binding site [ion binding]; other site 693745003380 G-X-G motif; other site 693745003381 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 693745003382 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 693745003383 dimerization interface [polypeptide binding]; other site 693745003384 DPS ferroxidase diiron center [ion binding]; other site 693745003385 ion pore; other site 693745003386 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 693745003387 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 693745003388 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 693745003389 substrate binding pocket [chemical binding]; other site 693745003390 chain length determination region; other site 693745003391 substrate-Mg2+ binding site; other site 693745003392 catalytic residues [active] 693745003393 aspartate-rich region 1; other site 693745003394 active site lid residues [active] 693745003395 aspartate-rich region 2; other site 693745003396 glutamyl-tRNA reductase; Region: hemA; TIGR01035 693745003397 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 693745003398 tRNA; other site 693745003399 putative tRNA binding site [nucleotide binding]; other site 693745003400 putative NADP binding site [chemical binding]; other site 693745003401 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 693745003402 prolyl-tRNA synthetase; Provisional; Region: PRK09194 693745003403 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 693745003404 dimer interface [polypeptide binding]; other site 693745003405 motif 1; other site 693745003406 active site 693745003407 motif 2; other site 693745003408 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 693745003409 putative deacylase active site [active] 693745003410 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 693745003411 active site 693745003412 motif 3; other site 693745003413 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 693745003414 anticodon binding site; other site 693745003415 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 693745003416 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 693745003417 domain interfaces; other site 693745003418 active site 693745003419 Cytochrome c; Region: Cytochrom_C; cl11414 693745003420 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 693745003421 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 693745003422 binding surface 693745003423 TPR motif; other site 693745003424 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 693745003425 binding surface 693745003426 TPR motif; other site 693745003427 Sel1-like repeats; Region: SEL1; smart00671 693745003428 Sel1-like repeats; Region: SEL1; smart00671 693745003429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 693745003430 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 693745003431 hypothetical protein; Provisional; Region: PRK04081 693745003432 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 693745003433 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 693745003434 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 693745003435 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 693745003436 Ligand binding site; other site 693745003437 oligomer interface; other site 693745003438 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745003439 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 693745003440 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 693745003441 Sulfate transporter family; Region: Sulfate_transp; pfam00916 693745003442 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745003443 Predicted permeases [General function prediction only]; Region: COG0730 693745003444 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 693745003445 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 693745003446 SelR domain; Region: SelR; pfam01641 693745003447 DNA repair protein RadA; Region: sms; TIGR00416 693745003448 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 693745003449 Walker A motif/ATP binding site; other site 693745003450 ATP binding site [chemical binding]; other site 693745003451 Walker B motif; other site 693745003452 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 693745003453 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 693745003454 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 693745003455 trimerization site [polypeptide binding]; other site 693745003456 active site 693745003457 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 693745003458 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 693745003459 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 693745003460 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 693745003461 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693745003462 catalytic residue [active] 693745003463 Helix-turn-helix domain; Region: HTH_28; pfam13518 693745003464 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 693745003465 substrate binding site [chemical binding]; other site 693745003466 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 693745003467 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 693745003468 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 693745003469 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 693745003470 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 693745003471 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 693745003472 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 693745003473 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 693745003474 transmembrane helices; other site 693745003475 glucose-inhibited division protein A; Region: gidA; TIGR00136 693745003476 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693745003477 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 693745003478 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 693745003479 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 693745003480 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 693745003481 metal binding site [ion binding]; metal-binding site 693745003482 dimer interface [polypeptide binding]; other site 693745003483 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 693745003484 Sel1-like repeats; Region: SEL1; smart00671 693745003485 Sel1-like repeats; Region: SEL1; smart00671 693745003486 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 693745003487 TPR motif; other site 693745003488 binding surface 693745003489 heat shock protein 90; Provisional; Region: PRK05218 693745003490 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 693745003491 ATP binding site [chemical binding]; other site 693745003492 Mg2+ binding site [ion binding]; other site 693745003493 G-X-G motif; other site 693745003494 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 693745003495 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 693745003496 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 693745003497 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 693745003498 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 693745003499 Ligand binding site; other site 693745003500 metal-binding site 693745003501 antiporter inner membrane protein; Provisional; Region: PRK11670 693745003502 Domain of unknown function DUF59; Region: DUF59; cl00941 693745003503 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 693745003504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693745003505 Walker A/P-loop; other site 693745003506 ATP binding site [chemical binding]; other site 693745003507 AAA domain; Region: AAA_21; pfam13304 693745003508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 693745003509 Walker B; other site 693745003510 D-loop; other site 693745003511 H-loop/switch region; other site 693745003512 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 693745003513 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 693745003514 dimer interface [polypeptide binding]; other site 693745003515 active site 693745003516 CoA binding pocket [chemical binding]; other site 693745003517 fatty acid/phospholipid synthesis protein PlsX; Region: plsX; TIGR00182 693745003518 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 693745003519 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 693745003520 active site 693745003521 multimer interface [polypeptide binding]; other site 693745003522 S-adenosylmethionine synthetase; Validated; Region: PRK05250 693745003523 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 693745003524 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 693745003525 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 693745003526 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 693745003527 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 693745003528 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 693745003529 trimer interface [polypeptide binding]; other site 693745003530 active site 693745003531 UDP-GlcNAc binding site [chemical binding]; other site 693745003532 lipid binding site [chemical binding]; lipid-binding site 693745003533 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 693745003534 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 693745003535 NAD binding site [chemical binding]; other site 693745003536 homotetramer interface [polypeptide binding]; other site 693745003537 homodimer interface [polypeptide binding]; other site 693745003538 substrate binding site [chemical binding]; other site 693745003539 active site 693745003540 triosephosphate isomerase; Provisional; Region: PRK14567 693745003541 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 693745003542 substrate binding site [chemical binding]; other site 693745003543 dimer interface [polypeptide binding]; other site 693745003544 catalytic triad [active] 693745003545 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 693745003546 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 693745003547 Iron-sulfur protein interface; other site 693745003548 proximal heme binding site [chemical binding]; other site 693745003549 distal heme binding site [chemical binding]; other site 693745003550 dimer interface [polypeptide binding]; other site 693745003551 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 693745003552 L-aspartate oxidase; Provisional; Region: PRK06175 693745003553 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 693745003554 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 693745003555 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 693745003556 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 693745003557 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 693745003558 PLD-like domain; Region: PLDc_2; pfam13091 693745003559 putative active site [active] 693745003560 catalytic site [active] 693745003561 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 693745003562 PLD-like domain; Region: PLDc_2; pfam13091 693745003563 putative active site [active] 693745003564 catalytic site [active] 693745003565 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 693745003566 Protein of unknown function DUF262; Region: DUF262; pfam03235 693745003567 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745003568 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 693745003569 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cd00525 693745003570 nucleotide binding site [chemical binding]; other site 693745003571 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 693745003572 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 693745003573 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 693745003574 dimer interface [polypeptide binding]; other site 693745003575 active site 693745003576 glycine-pyridoxal phosphate binding site [chemical binding]; other site 693745003577 folate binding site [chemical binding]; other site 693745003578 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 693745003579 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 693745003580 dimer interface [polypeptide binding]; other site 693745003581 putative anticodon binding site; other site 693745003582 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 693745003583 motif 1; other site 693745003584 active site 693745003585 motif 2; other site 693745003586 motif 3; other site 693745003587 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 693745003588 Colicin V production protein; Region: Colicin_V; pfam02674 693745003589 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 693745003590 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 693745003591 active site 693745003592 catalytic triad [active] 693745003593 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 693745003594 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 693745003595 Walker A/P-loop; other site 693745003596 ATP binding site [chemical binding]; other site 693745003597 Q-loop/lid; other site 693745003598 ABC transporter signature motif; other site 693745003599 Walker B; other site 693745003600 D-loop; other site 693745003601 H-loop/switch region; other site 693745003602 pseudaminic acid synthase; Region: PseI; TIGR03586 693745003603 NeuB family; Region: NeuB; pfam03102 693745003604 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 693745003605 NeuB binding interface [polypeptide binding]; other site 693745003606 putative substrate binding site [chemical binding]; other site 693745003607 elongation factor P; Validated; Region: PRK00529 693745003608 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 693745003609 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 693745003610 RNA binding site [nucleotide binding]; other site 693745003611 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 693745003612 RNA binding site [nucleotide binding]; other site 693745003613 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 693745003614 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 693745003615 intersubunit interface [polypeptide binding]; other site 693745003616 active site 693745003617 zinc binding site [ion binding]; other site 693745003618 Na+ binding site [ion binding]; other site 693745003619 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 693745003620 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 693745003621 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 693745003622 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 693745003623 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 693745003624 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 693745003625 dimer interface [polypeptide binding]; other site 693745003626 putative functional site; other site 693745003627 putative MPT binding site; other site 693745003628 peptide chain release factor 2; Region: prfB; TIGR00020 693745003629 This domain is found in peptide chain release factors; Region: PCRF; smart00937 693745003630 RF-1 domain; Region: RF-1; pfam00472 693745003631 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 693745003632 Peptidase family U32; Region: Peptidase_U32; pfam01136 693745003633 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 693745003634 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 693745003635 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 693745003636 active site 693745003637 phosphorylation site [posttranslational modification] 693745003638 intermolecular recognition site; other site 693745003639 dimerization interface [polypeptide binding]; other site 693745003640 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 693745003641 DNA binding site [nucleotide binding] 693745003642 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 693745003643 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 693745003644 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 693745003645 dimer interface [polypeptide binding]; other site 693745003646 phosphorylation site [posttranslational modification] 693745003647 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 693745003648 ATP binding site [chemical binding]; other site 693745003649 Mg2+ binding site [ion binding]; other site 693745003650 G-X-G motif; other site 693745003651 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 693745003652 dimer interface [polypeptide binding]; other site 693745003653 active site 693745003654 Schiff base residues; other site 693745003655 hypothetical protein; Provisional; Region: PRK12378 693745003656 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 693745003657 Sel1-like repeats; Region: SEL1; smart00671 693745003658 Sel1-like repeats; Region: SEL1; smart00671 693745003659 Sel1-like repeats; Region: SEL1; smart00671 693745003660 Sel1-like repeats; Region: SEL1; smart00671 693745003661 Sel1-like repeats; Region: SEL1; smart00671 693745003662 Sel1-like repeats; Region: SEL1; smart00671 693745003663 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 693745003664 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 693745003665 Ligand binding site; other site 693745003666 metal-binding site 693745003667 Cache domain; Region: Cache_1; pfam02743 693745003668 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 693745003669 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 693745003670 ADP binding site [chemical binding]; other site 693745003671 magnesium binding site [ion binding]; other site 693745003672 putative shikimate binding site; other site 693745003673 AMIN domain; Region: AMIN; pfam11741 693745003674 enolase; Provisional; Region: eno; PRK00077 693745003675 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 693745003676 dimer interface [polypeptide binding]; other site 693745003677 metal binding site [ion binding]; metal-binding site 693745003678 substrate binding pocket [chemical binding]; other site 693745003679 recombinase A; Provisional; Region: recA; PRK09354 693745003680 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 693745003681 hexamer interface [polypeptide binding]; other site 693745003682 Walker A motif; other site 693745003683 ATP binding site [chemical binding]; other site 693745003684 Walker B motif; other site 693745003685 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 693745003686 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 693745003687 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 693745003688 Cytochrome c; Region: Cytochrom_C; pfam00034 693745003689 Cytochrome c; Region: Cytochrom_C; pfam00034 693745003690 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 693745003691 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 693745003692 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 693745003693 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 693745003694 Low-spin heme binding site [chemical binding]; other site 693745003695 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 693745003696 D-pathway; other site 693745003697 Putative water exit pathway; other site 693745003698 Binuclear center (active site) [active] 693745003699 K-pathway; other site 693745003700 Putative proton exit pathway; other site 693745003701 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 693745003702 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; cd00625 693745003703 transmembrane helices; other site 693745003704 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 693745003705 DNA glycosylase MutY; Provisional; Region: PRK13910 693745003706 minor groove reading motif; other site 693745003707 helix-hairpin-helix signature motif; other site 693745003708 substrate binding pocket [chemical binding]; other site 693745003709 active site 693745003710 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 693745003711 DNA binding and oxoG recognition site [nucleotide binding] 693745003712 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 693745003713 L-lactate transport; Region: lctP; TIGR00795 693745003714 L-lactate transport; Region: lctP; TIGR00795 693745003715 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 693745003716 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 693745003717 Cysteine-rich domain; Region: CCG; pfam02754 693745003718 Cysteine-rich domain; Region: CCG; pfam02754 693745003719 iron-sulfur cluster-binding protein; Region: TIGR00273 693745003720 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 693745003721 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 693745003722 Uncharacterized conserved protein [Function unknown]; Region: COG1556 693745003723 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 693745003724 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 693745003725 catalytic triad [active] 693745003726 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 693745003727 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 693745003728 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 693745003729 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 693745003730 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 693745003731 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 693745003732 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 693745003733 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745003734 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 693745003735 23S rRNA binding site [nucleotide binding]; other site 693745003736 L21 binding site [polypeptide binding]; other site 693745003737 L13 binding site [polypeptide binding]; other site 693745003738 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 693745003739 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 693745003740 translation initiation factor IF-3; Region: infC; TIGR00168 693745003741 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 693745003742 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 693745003743 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 693745003744 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 693745003745 active site 693745003746 dimer interface [polypeptide binding]; other site 693745003747 motif 1; other site 693745003748 motif 2; other site 693745003749 motif 3; other site 693745003750 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 693745003751 anticodon binding site; other site 693745003752 phosphoenolpyruvate synthase; Validated; Region: PRK06464 693745003753 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 693745003754 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 693745003755 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 693745003756 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 693745003757 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 693745003758 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 693745003759 FeS/SAM binding site; other site 693745003760 DNA topoisomerase I; Validated; Region: PRK05582 693745003761 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 693745003762 active site 693745003763 interdomain interaction site; other site 693745003764 putative metal-binding site [ion binding]; other site 693745003765 nucleotide binding site [chemical binding]; other site 693745003766 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 693745003767 domain I; other site 693745003768 DNA binding groove [nucleotide binding] 693745003769 phosphate binding site [ion binding]; other site 693745003770 domain II; other site 693745003771 domain III; other site 693745003772 nucleotide binding site [chemical binding]; other site 693745003773 catalytic site [active] 693745003774 domain IV; other site 693745003775 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 693745003776 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 693745003777 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 693745003778 flagellin B; Provisional; Region: PRK13588 693745003779 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 693745003780 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 693745003781 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 693745003782 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 693745003783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 693745003784 hypothetical protein; Provisional; Region: PRK05834 693745003785 intersubunit interface [polypeptide binding]; other site 693745003786 active site 693745003787 Zn2+ binding site [ion binding]; other site 693745003788 heat-inducible transcription repressor; Provisional; Region: PRK03911 693745003789 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 693745003790 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 693745003791 dimer interface [polypeptide binding]; other site 693745003792 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 693745003793 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 693745003794 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 693745003795 nucleotide binding site [chemical binding]; other site 693745003796 NEF interaction site [polypeptide binding]; other site 693745003797 SBD interface [polypeptide binding]; other site 693745003798 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 693745003799 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 693745003800 dimer interface [polypeptide binding]; other site 693745003801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693745003802 catalytic residue [active] 693745003803 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 693745003804 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 693745003805 homodimer interface [polypeptide binding]; other site 693745003806 substrate-cofactor binding pocket; other site 693745003807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693745003808 catalytic residue [active] 693745003809 S-ribosylhomocysteinase; Provisional; Region: PRK02260 693745003810 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 693745003811 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 693745003812 active site 693745003813 metal binding site [ion binding]; metal-binding site 693745003814 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 693745003815 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 693745003816 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 693745003817 dimerization interface [polypeptide binding]; other site 693745003818 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 693745003819 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 693745003820 dimer interface [polypeptide binding]; other site 693745003821 putative CheW interface [polypeptide binding]; other site 693745003822 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693745003823 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 693745003824 metal-binding site 693745003825 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745003826 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 693745003827 Ligand Binding Site [chemical binding]; other site 693745003828 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 693745003829 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 693745003830 dimer interface [polypeptide binding]; other site 693745003831 putative CheW interface [polypeptide binding]; other site 693745003832 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 693745003833 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 693745003834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693745003835 catalytic residue [active] 693745003836 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 693745003837 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 693745003838 NAD binding site [chemical binding]; other site 693745003839 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 693745003840 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 693745003841 GDP-Fucose binding site [chemical binding]; other site 693745003842 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 693745003843 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 693745003844 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745003845 Protein of unknown function (DUF511); Region: DUF511; pfam04373 693745003846 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 693745003847 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 693745003848 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 693745003849 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 693745003850 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 693745003851 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 693745003852 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693745003853 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 693745003854 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 693745003855 DNA binding residues [nucleotide binding] 693745003856 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 693745003857 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 693745003858 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 693745003859 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 693745003860 NlpC/P60 family; Region: NLPC_P60; cl17555 693745003861 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 693745003862 Predicted dehydrogenase [General function prediction only]; Region: COG0579 693745003863 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 693745003864 23S rRNA interface [nucleotide binding]; other site 693745003865 L3 interface [polypeptide binding]; other site 693745003866 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 693745003867 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 693745003868 dimer interface [polypeptide binding]; other site 693745003869 putative CheW interface [polypeptide binding]; other site 693745003870 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745003871 peptide chain release factor 1; Validated; Region: prfA; PRK00591 693745003872 This domain is found in peptide chain release factors; Region: PCRF; smart00937 693745003873 RF-1 domain; Region: RF-1; pfam00472 693745003874 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 693745003875 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 693745003876 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 693745003877 active site 693745003878 substrate binding site [chemical binding]; other site 693745003879 metal binding site [ion binding]; metal-binding site 693745003880 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 693745003881 urease subunit alpha; Provisional; Region: PRK13986 693745003882 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 693745003883 alpha-gamma subunit interface [polypeptide binding]; other site 693745003884 beta-gamma subunit interface [polypeptide binding]; other site 693745003885 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 693745003886 gamma-beta subunit interface [polypeptide binding]; other site 693745003887 alpha-beta subunit interface [polypeptide binding]; other site 693745003888 urease subunit beta; Provisional; Region: ureB; PRK13985 693745003889 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 693745003890 subunit interactions [polypeptide binding]; other site 693745003891 active site 693745003892 flap region; other site 693745003893 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 693745003894 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 693745003895 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 693745003896 dimer interface [polypeptide binding]; other site 693745003897 catalytic residues [active] 693745003898 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 693745003899 UreF; Region: UreF; pfam01730 693745003900 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 693745003901 G1 box; other site 693745003902 GTP/Mg2+ binding site [chemical binding]; other site 693745003903 G2 box; other site 693745003904 Switch I region; other site 693745003905 G3 box; other site 693745003906 Switch II region; other site 693745003907 G4 box; other site 693745003908 G5 box; other site 693745003909 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 693745003910 potential frameshift: common BLAST hit: gi|15644696|ref|NP_206866.1| ATP-binding protein 693745003911 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 693745003912 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 693745003913 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 693745003914 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 693745003915 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 693745003916 Proteins of 100 residues with WXG; Region: WXG100; cl02005 693745003917 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 693745003918 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 693745003919 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 693745003920 Proline dehydrogenase; Region: Pro_dh; pfam01619 693745003921 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 693745003922 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 693745003923 Glutamate binding site [chemical binding]; other site 693745003924 NAD binding site [chemical binding]; other site 693745003925 catalytic residues [active] 693745003926 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 693745003927 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 693745003928 Na binding site [ion binding]; other site 693745003929 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 693745003930 cofactor binding site; other site 693745003931 Tsp45I type II restriction enzyme; Region: Tsp45I; pfam06300 693745003932 potential frameshift: common BLAST hit: gi|108562473|ref|YP_626789.1| type II DNA modification enzyme 693745003933 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 693745003934 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745003935 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 693745003936 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745003937 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; cl00083 693745003938 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 693745003939 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 693745003940 cofactor binding site; other site 693745003941 DNA binding site [nucleotide binding] 693745003942 substrate interaction site [chemical binding]; other site 693745003943 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 693745003944 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 693745003945 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745003946 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 693745003947 Predicted helicase [General function prediction only]; Region: COG4889 693745003948 Predicted helicase [General function prediction only]; Region: COG4889 693745003949 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 693745003950 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 693745003951 dimerization interface [polypeptide binding]; other site 693745003952 active site 693745003953 quinolinate synthetase complex, A subunit; Region: nadA; TIGR00550 693745003954 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 693745003955 prenyltransferase; Reviewed; Region: ubiA; PRK12874 693745003956 UbiA prenyltransferase family; Region: UbiA; pfam01040 693745003957 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 693745003958 Competence protein; Region: Competence; pfam03772 693745003959 replicative DNA helicase; Provisional; Region: PRK08506 693745003960 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 693745003961 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 693745003962 Walker A motif; other site 693745003963 ATP binding site [chemical binding]; other site 693745003964 Walker B motif; other site 693745003965 DNA binding loops [nucleotide binding] 693745003966 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 693745003967 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 693745003968 putative substrate binding site [chemical binding]; other site 693745003969 putative ATP binding site [chemical binding]; other site 693745003970 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 693745003971 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; cl00080 693745003972 dimer interface [polypeptide binding]; other site 693745003973 phosphorylation site [posttranslational modification] 693745003974 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 693745003975 ATP binding site [chemical binding]; other site 693745003976 Mg2+ binding site [ion binding]; other site 693745003977 G-X-G motif; other site 693745003978 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 693745003979 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 693745003980 active site 693745003981 phosphorylation site [posttranslational modification] 693745003982 intermolecular recognition site; other site 693745003983 dimerization interface [polypeptide binding]; other site 693745003984 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 693745003985 DNA binding site [nucleotide binding] 693745003986 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 693745003987 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745003988 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 693745003989 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745003990 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 693745003991 DEAD-like helicases superfamily; Region: DEXDc; smart00487 693745003992 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 693745003993 rod shape-determining protein MreC; Region: MreC; pfam04085 693745003994 rod shape-determining protein MreB; Provisional; Region: PRK13927 693745003995 MreB and similar proteins; Region: MreB_like; cd10225 693745003996 nucleotide binding site [chemical binding]; other site 693745003997 Mg binding site [ion binding]; other site 693745003998 putative protofilament interaction site [polypeptide binding]; other site 693745003999 RodZ interaction site [polypeptide binding]; other site 693745004000 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 693745004001 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 693745004002 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 693745004003 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 693745004004 Walker A motif; other site 693745004005 ATP binding site [chemical binding]; other site 693745004006 Walker B motif; other site 693745004007 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 693745004008 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 693745004009 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 693745004010 active site 693745004011 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 693745004012 flagellar assembly protein FliW; Provisional; Region: PRK13282 693745004013 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 693745004014 ATP-dependent protease La; Region: lon; TIGR00763 693745004015 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 693745004016 Walker A motif; other site 693745004017 ATP binding site [chemical binding]; other site 693745004018 Walker B motif; other site 693745004019 arginine finger; other site 693745004020 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 693745004021 prephenate dehydrogenase; Validated; Region: PRK08507 693745004022 Prephenate dehydrogenase; Region: PDH; pfam02153 693745004023 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 693745004024 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 693745004025 active site 693745004026 substrate binding site [chemical binding]; other site 693745004027 Mg2+ binding site [ion binding]; other site 693745004028 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 693745004029 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 693745004030 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745004031 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745004032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 693745004033 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 693745004034 ATP binding site [chemical binding]; other site 693745004035 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 693745004036 putative Mg++ binding site [ion binding]; other site 693745004037 biotin synthase; Provisional; Region: PRK08508 693745004038 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 693745004039 FeS/SAM binding site; other site 693745004040 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 693745004041 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 693745004042 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745004043 Protein of unknown function DUF262; Region: DUF262; pfam03235 693745004044 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745004045 Protein of unknown function DUF262; Region: DUF262; pfam03235 693745004046 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 693745004047 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 693745004048 DHH family; Region: DHH; pfam01368 693745004049 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 693745004050 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 693745004051 Oligomerisation domain; Region: Oligomerisation; cl00519 693745004052 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 693745004053 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 693745004054 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 693745004055 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 693745004056 Ligand binding site; other site 693745004057 metal-binding site 693745004058 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 693745004059 DNA methylase; Region: N6_N4_Mtase; pfam01555 693745004060 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 693745004061 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 693745004062 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 693745004063 Acylphosphatase; Region: Acylphosphatase; pfam00708 693745004064 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 693745004065 HypF finger; Region: zf-HYPF; pfam07503 693745004066 HypF finger; Region: zf-HYPF; pfam07503 693745004067 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 693745004068 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 693745004069 dimerization interface [polypeptide binding]; other site 693745004070 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 693745004071 ATP binding site [chemical binding]; other site 693745004072 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 693745004073 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 693745004074 NADP binding site [chemical binding]; other site 693745004075 active site 693745004076 putative substrate binding site [chemical binding]; other site 693745004077 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 693745004078 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 693745004079 NADP-binding site; other site 693745004080 homotetramer interface [polypeptide binding]; other site 693745004081 substrate binding site [chemical binding]; other site 693745004082 homodimer interface [polypeptide binding]; other site 693745004083 active site 693745004084 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 693745004085 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 693745004086 Substrate binding site; other site 693745004087 Cupin domain; Region: Cupin_2; cl17218 693745004088 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 693745004089 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 693745004090 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 693745004091 VirB7 interaction site; other site 693745004092 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 693745004093 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 693745004094 PDZ domain; Region: PDZ_2; pfam13180 693745004095 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 693745004096 hypothetical protein; Provisional; Region: PRK03762 693745004097 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 693745004098 tetramerization interface [polypeptide binding]; other site 693745004099 active site 693745004100 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 693745004101 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 693745004102 Walker A motif; other site 693745004103 ATP binding site [chemical binding]; other site 693745004104 Walker B motif; other site 693745004105 arginine finger; other site 693745004106 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 693745004107 Walker A motif; other site 693745004108 ATP binding site [chemical binding]; other site 693745004109 Walker B motif; other site 693745004110 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 693745004111 Uncharacterized conserved protein [Function unknown]; Region: COG2127 693745004112 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 693745004113 Ligand Binding Site [chemical binding]; other site 693745004114 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 693745004115 AAA domain; Region: AAA_26; pfam13500 693745004116 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 693745004117 isocitrate dehydrogenase; Validated; Region: PRK07362 693745004118 isocitrate dehydrogenase; Reviewed; Region: PRK07006 693745004119 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 693745004120 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 693745004121 dimer interface [polypeptide binding]; other site 693745004122 active site 693745004123 citrylCoA binding site [chemical binding]; other site 693745004124 NADH binding [chemical binding]; other site 693745004125 cationic pore residues; other site 693745004126 oxalacetate/citrate binding site [chemical binding]; other site 693745004127 coenzyme A binding site [chemical binding]; other site 693745004128 catalytic triad [active] 693745004129 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745004130 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 693745004131 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 693745004132 Sulfatase; Region: Sulfatase; pfam00884 693745004133 lipid A 1-phosphatase; Reviewed; Region: PRK09597 693745004134 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 693745004135 active site 693745004136 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 693745004137 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 693745004138 dimer interface [polypeptide binding]; other site 693745004139 active site 693745004140 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693745004141 catalytic residues [active] 693745004142 substrate binding site [chemical binding]; other site 693745004143 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 693745004144 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 693745004145 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 693745004146 active site 693745004147 phosphorylation site [posttranslational modification] 693745004148 intermolecular recognition site; other site 693745004149 dimerization interface [polypeptide binding]; other site 693745004150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 693745004151 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 693745004152 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 693745004153 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 693745004154 Walker A motif; other site 693745004155 ATP binding site [chemical binding]; other site 693745004156 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 693745004157 TrbC/VIRB2 family; Region: TrbC; cl01583 693745004158 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 693745004159 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 693745004160 Ligand Binding Site [chemical binding]; other site 693745004161 DNA primase, catalytic core; Region: dnaG; TIGR01391 693745004162 CHC2 zinc finger; Region: zf-CHC2; pfam01807 693745004163 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 693745004164 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 693745004165 active site 693745004166 metal binding site [ion binding]; metal-binding site 693745004167 interdomain interaction site; other site 693745004168 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 693745004169 oligomerisation interface [polypeptide binding]; other site 693745004170 mobile loop; other site 693745004171 roof hairpin; other site 693745004172 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 693745004173 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 693745004174 ring oligomerisation interface [polypeptide binding]; other site 693745004175 ATP/Mg binding site [chemical binding]; other site 693745004176 stacking interactions; other site 693745004177 hinge regions; other site 693745004178 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745004179 pantoate--beta-alanine ligase; Region: panC; TIGR00018 693745004180 Pantoate-beta-alanine ligase; Region: PanC; cd00560 693745004181 active site 693745004182 ATP-binding site [chemical binding]; other site 693745004183 pantoate-binding site; other site 693745004184 HXXH motif; other site 693745004185 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 693745004186 active site 693745004187 dimer interface [polypeptide binding]; other site 693745004188 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_cladeB; cd00884 693745004189 active site clefts [active] 693745004190 zinc binding site [ion binding]; other site 693745004191 dimer interface [polypeptide binding]; other site 693745004192 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 693745004193 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 693745004194 homopentamer interface [polypeptide binding]; other site 693745004195 active site 693745004196 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 693745004197 putative RNA binding site [nucleotide binding]; other site 693745004198 hypothetical protein; Provisional; Region: PRK10236 693745004199 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 693745004200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 693745004201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 693745004202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 693745004203 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 693745004204 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 693745004205 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 693745004206 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 693745004207 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 693745004208 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 693745004209 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 693745004210 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 693745004211 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 693745004212 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 693745004213 active site 693745004214 hydrophilic channel; other site 693745004215 dimerization interface [polypeptide binding]; other site 693745004216 catalytic residues [active] 693745004217 active site lid [active] 693745004218 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 693745004219 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 693745004220 Mg++ binding site [ion binding]; other site 693745004221 putative catalytic motif [active] 693745004222 anthranilate phosphoribosyltransferase; Region: PLN02641 693745004223 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 693745004224 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 693745004225 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 693745004226 Walker A/P-loop; other site 693745004227 ATP binding site [chemical binding]; other site 693745004228 Q-loop/lid; other site 693745004229 ABC transporter signature motif; other site 693745004230 Walker B; other site 693745004231 D-loop; other site 693745004232 H-loop/switch region; other site 693745004233 NIL domain; Region: NIL; pfam09383 693745004234 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 693745004235 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 693745004236 Lumazine binding domain; Region: Lum_binding; pfam00677 693745004237 Lumazine binding domain; Region: Lum_binding; pfam00677 693745004238 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 693745004239 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 693745004240 active site 693745004241 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 693745004242 N-acetyl-D-glucosamine binding site [chemical binding]; other site 693745004243 catalytic residue [active] 693745004244 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 693745004245 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 693745004246 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 693745004247 Sporulation related domain; Region: SPOR; pfam05036 693745004248 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 693745004249 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 693745004250 motif II; other site 693745004251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 693745004252 OstA-like protein; Region: OstA; pfam03968 693745004253 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 693745004254 G1 box; other site 693745004255 GTP/Mg2+ binding site [chemical binding]; other site 693745004256 Switch I region; other site 693745004257 G2 box; other site 693745004258 G3 box; other site 693745004259 Switch II region; other site 693745004260 G4 box; other site 693745004261 G5 box; other site 693745004262 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 693745004263 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 693745004264 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 693745004265 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 693745004266 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 693745004267 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 693745004268 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 693745004269 dimer interface [polypeptide binding]; other site 693745004270 decamer (pentamer of dimers) interface [polypeptide binding]; other site 693745004271 catalytic triad [active] 693745004272 peroxidatic and resolving cysteines [active] 693745004273 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 693745004274 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 693745004275 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 693745004276 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 693745004277 putative ligand binding site [chemical binding]; other site 693745004278 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 693745004279 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 693745004280 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 693745004281 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 693745004282 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 693745004283 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 693745004284 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 693745004285 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 693745004286 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 693745004287 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 693745004288 Sulfatase; Region: Sulfatase; pfam00884 693745004289 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 693745004290 Cytochrome c; Region: Cytochrom_C; pfam00034 693745004291 Cytochrome c; Region: Cytochrom_C; cl11414 693745004292 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 693745004293 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 693745004294 intrachain domain interface; other site 693745004295 interchain domain interface [polypeptide binding]; other site 693745004296 heme bH binding site [chemical binding]; other site 693745004297 Qi binding site; other site 693745004298 heme bL binding site [chemical binding]; other site 693745004299 Qo binding site; other site 693745004300 interchain domain interface [polypeptide binding]; other site 693745004301 intrachain domain interface; other site 693745004302 Qi binding site; other site 693745004303 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 693745004304 Qo binding site; other site 693745004305 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 693745004306 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 693745004307 [2Fe-2S] cluster binding site [ion binding]; other site 693745004308 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 693745004309 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 693745004310 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 693745004311 ATP binding site [chemical binding]; other site 693745004312 putative Mg++ binding site [ion binding]; other site 693745004313 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 693745004314 nucleotide binding region [chemical binding]; other site 693745004315 ATP-binding site [chemical binding]; other site 693745004316 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 693745004317 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 693745004318 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 693745004319 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 693745004320 Peptidase family M23; Region: Peptidase_M23; pfam01551 693745004321 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 693745004322 Peptidase family M23; Region: Peptidase_M23; pfam01551 693745004323 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 693745004324 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693745004325 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693745004326 Lipopolysaccharide-assembly; Region: LptE; pfam04390 693745004327 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 693745004328 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 693745004329 HIGH motif; other site 693745004330 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 693745004331 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 693745004332 active site 693745004333 KMSKS motif; other site 693745004334 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 693745004335 tRNA binding surface [nucleotide binding]; other site 693745004336 anticodon binding site; other site 693745004337 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 693745004338 Protein export membrane protein; Region: SecD_SecF; pfam02355 693745004339 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 693745004340 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 693745004341 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 693745004342 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 693745004343 putative recombination protein RecB; Provisional; Region: PRK13909 693745004344 Family description; Region: UvrD_C_2; pfam13538 693745004345 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 693745004346 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 693745004347 rRNA interaction site [nucleotide binding]; other site 693745004348 S8 interaction site; other site 693745004349 putative laminin-1 binding site; other site 693745004350 elongation factor Ts; Provisional; Region: tsf; PRK09377 693745004351 UBA/TS-N domain; Region: UBA; pfam00627 693745004352 Elongation factor TS; Region: EF_TS; pfam00889 693745004353 Elongation factor TS; Region: EF_TS; pfam00889 693745004354 Methyltransferase domain; Region: Methyltransf_26; pfam13659 693745004355 Fructose-1,6-bisphosphatase [Carbohydrate transport and metabolism]; Region: Fbp; COG0158 693745004356 active site 693745004357 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 693745004358 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 693745004359 active site 693745004360 catalytic site [active] 693745004361 substrate binding site [chemical binding]; other site 693745004362 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 693745004363 TPR motif; other site 693745004364 binding surface 693745004365 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 693745004366 Sel1-like repeats; Region: SEL1; smart00671 693745004367 Sel1-like repeats; Region: SEL1; smart00671 693745004368 Sel1-like repeats; Region: SEL1; smart00671 693745004369 Sel1-like repeats; Region: SEL1; smart00671 693745004370 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 693745004371 Domain of unknown function (DUF814); Region: DUF814; pfam05670 693745004372 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 693745004373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693745004374 Walker A/P-loop; other site 693745004375 ATP binding site [chemical binding]; other site 693745004376 Q-loop/lid; other site 693745004377 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 693745004378 ABC transporter signature motif; other site 693745004379 Walker B; other site 693745004380 D-loop; other site 693745004381 H-loop/switch region; other site 693745004382 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 693745004383 ATP-NAD kinase; Region: NAD_kinase; pfam01513 693745004384 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 693745004385 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 693745004386 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745004387 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745004388 Protein of unknown function DUF262; Region: DUF262; pfam03235 693745004389 Uncharacterized conserved protein [Function unknown]; Region: COG1479 693745004390 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 693745004391 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 693745004392 hexamer interface [polypeptide binding]; other site 693745004393 ligand binding site [chemical binding]; other site 693745004394 putative active site [active] 693745004395 NAD(P) binding site [chemical binding]; other site 693745004396 Arginase family; Region: Arginase; cd09989 693745004397 active site 693745004398 Mn binding site [ion binding]; other site 693745004399 oligomer interface [polypeptide binding]; other site 693745004400 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 693745004401 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 693745004402 N-terminal plug; other site 693745004403 ligand-binding site [chemical binding]; other site 693745004404 Protein of unknown function DUF45; Region: DUF45; pfam01863 693745004405 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 693745004406 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 693745004407 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 693745004408 ATP binding site [chemical binding]; other site 693745004409 putative Mg++ binding site [ion binding]; other site 693745004410 HsdM N-terminal domain; Region: HsdM_N; pfam12161 693745004411 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 693745004412 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 693745004413 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693745004414 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 693745004415 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 693745004416 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 693745004417 glutaminase active site [active] 693745004418 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 693745004419 dimer interface [polypeptide binding]; other site 693745004420 active site 693745004421 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 693745004422 dimer interface [polypeptide binding]; other site 693745004423 active site 693745004424 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 693745004425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 693745004426 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01315 693745004427 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 693745004428 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 693745004429 potential protein location (conserved hypothetical protein) that overlaps protein (MobA-like protein) 693745004430 potential protein location (conserved hypothetical protein) that overlaps protein (MobA-like protein) 693745004431 Initiator Replication protein; Region: Rep_3; pfam01051 693745004432 potential protein location (conserved hypothetical protein) that overlaps protein (replication initiation protein A) 693745004433 potential protein location (conserved hypothetical protein) that overlaps protein (replication initiation protein A)