-- dump date 20140619_112728 -- class Genbank::misc_feature -- table misc_feature_note -- id note 585538000001 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 585538000002 putative RNA binding site [nucleotide binding]; other site 585538000003 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 585538000004 homopentamer interface [polypeptide binding]; other site 585538000005 active site 585538000006 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 585538000007 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 585538000008 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 585538000009 active site clefts [active] 585538000010 zinc binding site [ion binding]; other site 585538000011 dimer interface [polypeptide binding]; other site 585538000012 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 585538000013 active site 585538000014 dimer interface [polypeptide binding]; other site 585538000015 pantoate--beta-alanine ligase; Region: panC; TIGR00018 585538000016 Pantoate-beta-alanine ligase; Region: PanC; cd00560 585538000017 active site 585538000018 ATP-binding site [chemical binding]; other site 585538000019 pantoate-binding site; other site 585538000020 HXXH motif; other site 585538000021 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538000022 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 585538000023 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 585538000024 ring oligomerisation interface [polypeptide binding]; other site 585538000025 ATP/Mg binding site [chemical binding]; other site 585538000026 stacking interactions; other site 585538000027 hinge regions; other site 585538000028 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 585538000029 oligomerisation interface [polypeptide binding]; other site 585538000030 mobile loop; other site 585538000031 roof hairpin; other site 585538000032 DNA primase, catalytic core; Region: dnaG; TIGR01391 585538000033 CHC2 zinc finger; Region: zf-CHC2; pfam01807 585538000034 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 585538000035 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 585538000036 active site 585538000037 metal binding site [ion binding]; metal-binding site 585538000038 interdomain interaction site; other site 585538000039 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 585538000040 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 585538000041 Ligand Binding Site [chemical binding]; other site 585538000042 TrbC/VIRB2 family; Region: TrbC; cl01583 585538000043 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 585538000044 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 585538000045 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 585538000046 Walker A motif; other site 585538000047 ATP binding site [chemical binding]; other site 585538000048 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 585538000049 Walker B motif; other site 585538000050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 585538000051 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 585538000052 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 585538000053 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 585538000054 active site 585538000055 phosphorylation site [posttranslational modification] 585538000056 intermolecular recognition site; other site 585538000057 dimerization interface [polypeptide binding]; other site 585538000058 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 585538000059 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 585538000060 dimer interface [polypeptide binding]; other site 585538000061 active site 585538000062 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 585538000063 catalytic residues [active] 585538000064 substrate binding site [chemical binding]; other site 585538000065 lipid A 1-phosphatase; Reviewed; Region: PRK09597 585538000066 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 585538000067 active site 585538000068 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 585538000069 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 585538000070 Sulfatase; Region: Sulfatase; pfam00884 585538000071 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538000072 prephenate dehydrogenase; Validated; Region: PRK08507 585538000073 Prephenate dehydrogenase; Region: PDH; pfam02153 585538000074 ATP-dependent protease La; Region: lon; TIGR00763 585538000075 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 585538000076 Walker A motif; other site 585538000077 ATP binding site [chemical binding]; other site 585538000078 Walker B motif; other site 585538000079 arginine finger; other site 585538000080 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 585538000081 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 585538000082 flagellar assembly protein FliW; Provisional; Region: PRK13282 585538000083 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 585538000084 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 585538000085 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 585538000086 active site 585538000087 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 585538000088 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 585538000089 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 585538000090 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 585538000091 Walker A motif; other site 585538000092 ATP binding site [chemical binding]; other site 585538000093 Walker B motif; other site 585538000094 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 585538000095 rod shape-determining protein MreB; Provisional; Region: PRK13927 585538000096 MreB and similar proteins; Region: MreB_like; cd10225 585538000097 nucleotide binding site [chemical binding]; other site 585538000098 Mg binding site [ion binding]; other site 585538000099 putative protofilament interaction site [polypeptide binding]; other site 585538000100 RodZ interaction site [polypeptide binding]; other site 585538000101 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 585538000102 rod shape-determining protein MreC; Region: MreC; pfam04085 585538000103 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 585538000104 DEAD-like helicases superfamily; Region: DEXDc; smart00487 585538000105 ATP binding site [chemical binding]; other site 585538000106 putative Mg++ binding site [ion binding]; other site 585538000107 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 585538000108 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538000109 potential frameshift: common BLAST hit: gi|308182976|ref|YP_003927103.1| Adenine-specific DNA methylase 585538000110 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 585538000111 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538000112 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 585538000113 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 585538000114 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 585538000115 active site 585538000116 phosphorylation site [posttranslational modification] 585538000117 intermolecular recognition site; other site 585538000118 dimerization interface [polypeptide binding]; other site 585538000119 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 585538000120 DNA binding site [nucleotide binding] 585538000121 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 585538000122 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 585538000123 dimer interface [polypeptide binding]; other site 585538000124 phosphorylation site [posttranslational modification] 585538000125 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 585538000126 ATP binding site [chemical binding]; other site 585538000127 Mg2+ binding site [ion binding]; other site 585538000128 G-X-G motif; other site 585538000129 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 585538000130 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 585538000131 putative ATP binding site [chemical binding]; other site 585538000132 putative substrate binding site [chemical binding]; other site 585538000133 replicative DNA helicase; Provisional; Region: PRK08506 585538000134 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 585538000135 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 585538000136 Walker A motif; other site 585538000137 ATP binding site [chemical binding]; other site 585538000138 Walker B motif; other site 585538000139 DNA binding loops [nucleotide binding] 585538000140 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 585538000141 Competence protein; Region: Competence; pfam03772 585538000142 prenyltransferase; Reviewed; Region: ubiA; PRK12874 585538000143 UbiA prenyltransferase family; Region: UbiA; pfam01040 585538000144 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 585538000145 Quinolinate synthetase A protein; Region: NadA; cl00420 585538000146 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 585538000147 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 585538000148 dimerization interface [polypeptide binding]; other site 585538000149 active site 585538000150 Predicted helicase [General function prediction only]; Region: COG4889 585538000151 Predicted helicase [General function prediction only]; Region: COG4889 585538000152 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 585538000153 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 585538000154 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 585538000155 C-terminal peptidase (prc); Region: prc; TIGR00225 585538000156 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 585538000157 protein binding site [polypeptide binding]; other site 585538000158 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 585538000159 Catalytic dyad [active] 585538000160 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 585538000161 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 585538000162 putative acyl-acceptor binding pocket; other site 585538000163 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 585538000164 ligand binding site [chemical binding]; other site 585538000165 active site 585538000166 UGI interface [polypeptide binding]; other site 585538000167 catalytic site [active] 585538000168 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 585538000169 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 585538000170 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 585538000171 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 585538000172 Phosphoglycerate kinase; Region: PGK; pfam00162 585538000173 substrate binding site [chemical binding]; other site 585538000174 hinge regions; other site 585538000175 ADP binding site [chemical binding]; other site 585538000176 catalytic site [active] 585538000177 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 585538000178 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 585538000179 Cl binding site [ion binding]; other site 585538000180 oligomer interface [polypeptide binding]; other site 585538000181 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 585538000182 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 585538000183 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538000184 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 585538000185 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 585538000186 DNA binding site [nucleotide binding] 585538000187 substrate interaction site [chemical binding]; other site 585538000188 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 585538000189 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 585538000190 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 585538000191 Na binding site [ion binding]; other site 585538000192 Proline dehydrogenase; Region: Pro_dh; pfam01619 585538000193 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 585538000194 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 585538000195 Glutamate binding site [chemical binding]; other site 585538000196 NAD binding site [chemical binding]; other site 585538000197 catalytic residues [active] 585538000198 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 585538000199 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 585538000200 active site 585538000201 catalytic residues [active] 585538000202 Int/Topo IB signature motif; other site 585538000203 DNA binding site [nucleotide binding] 585538000204 HipA-like C-terminal domain; Region: HipA_C; pfam07804 585538000205 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 585538000206 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 585538000207 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 585538000208 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 585538000209 P-loop; other site 585538000210 Magnesium ion binding site [ion binding]; other site 585538000211 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 585538000212 Transposase IS200 like; Region: Y1_Tnp; pfam01797 585538000213 potential frameshift: common BLAST hit: gi|15646142|ref|NP_208324.1| IS605 transposase (tnpB) 585538000214 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 585538000215 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 585538000216 Probable transposase; Region: OrfB_IS605; pfam01385 585538000217 Probable transposase; Region: OrfB_IS605; pfam01385 585538000218 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 585538000219 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 585538000220 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 585538000221 potential frameshift: common BLAST hit: gi|298736041|ref|YP_003728566.1| type IV secretion system protein VirB9 585538000222 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 585538000223 VirB7 interaction site; other site 585538000224 potential frameshift: common BLAST hit: gi|298736041|ref|YP_003728566.1| type IV secretion system protein VirB9 585538000225 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 585538000226 VirB8 protein; Region: VirB8; cl01500 585538000227 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 585538000228 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 585538000229 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 585538000230 Walker A motif; other site 585538000231 ATP binding site [chemical binding]; other site 585538000232 Walker B motif; other site 585538000233 TrbC/VIRB2 family; Region: TrbC; cl01583 585538000234 hypothetical protein; Provisional; Region: PRK11281 585538000235 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 585538000236 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 585538000237 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 585538000238 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 585538000239 G1 box; other site 585538000240 GTP/Mg2+ binding site [chemical binding]; other site 585538000241 G2 box; other site 585538000242 Switch I region; other site 585538000243 G3 box; other site 585538000244 Switch II region; other site 585538000245 G4 box; other site 585538000246 G5 box; other site 585538000247 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 585538000248 UreF; Region: UreF; pfam01730 585538000249 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 585538000250 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 585538000251 dimer interface [polypeptide binding]; other site 585538000252 catalytic residues [active] 585538000253 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 585538000254 urease subunit beta; Provisional; Region: ureB; PRK13985 585538000255 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 585538000256 subunit interactions [polypeptide binding]; other site 585538000257 active site 585538000258 flap region; other site 585538000259 urease subunit alpha; Provisional; Region: PRK13986 585538000260 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 585538000261 alpha-gamma subunit interface [polypeptide binding]; other site 585538000262 beta-gamma subunit interface [polypeptide binding]; other site 585538000263 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 585538000264 gamma-beta subunit interface [polypeptide binding]; other site 585538000265 alpha-beta subunit interface [polypeptide binding]; other site 585538000266 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 585538000267 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 585538000268 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 585538000269 active site 585538000270 substrate binding site [chemical binding]; other site 585538000271 metal binding site [ion binding]; metal-binding site 585538000272 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 585538000273 peptide chain release factor 1; Validated; Region: prfA; PRK00591 585538000274 This domain is found in peptide chain release factors; Region: PCRF; smart00937 585538000275 RF-1 domain; Region: RF-1; pfam00472 585538000276 potential frameshift: common BLAST hit: gi|210134284|ref|YP_002300723.1| outer membrane protein HorA 585538000277 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538000278 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 585538000279 dimer interface [polypeptide binding]; other site 585538000280 putative CheW interface [polypeptide binding]; other site 585538000281 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 585538000282 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 585538000283 23S rRNA interface [nucleotide binding]; other site 585538000284 L3 interface [polypeptide binding]; other site 585538000285 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 585538000286 Predicted dehydrogenase [General function prediction only]; Region: COG0579 585538000287 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 585538000288 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 585538000289 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 585538000290 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 585538000291 NlpC/P60 family; Region: NLPC_P60; pfam00877 585538000292 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 585538000293 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 585538000294 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 585538000295 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 585538000296 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 585538000297 DNA binding residues [nucleotide binding] 585538000298 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 585538000299 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 585538000300 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 585538000301 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 585538000302 potential frameshift: common BLAST hit: gi|108562517|ref|YP_626833.1| HrgA protein 585538000303 Protein of unknown function (DUF511); Region: DUF511; cl01114 585538000304 Protein of unknown function (DUF511); Region: DUF511; cl01114 585538000305 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 585538000306 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538000307 potential frameshift: common BLAST hit: gi|188526899|ref|YP_001909586.1| alpha-1,2-fucosyltransferase 585538000308 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 585538000309 GDP-Fucose binding site [chemical binding]; other site 585538000310 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 585538000311 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 585538000312 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 585538000313 NAD binding site [chemical binding]; other site 585538000314 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 585538000315 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 585538000316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585538000317 catalytic residue [active] 585538000318 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 585538000319 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 585538000320 dimer interface [polypeptide binding]; other site 585538000321 putative CheW interface [polypeptide binding]; other site 585538000322 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 585538000323 Ligand Binding Site [chemical binding]; other site 585538000324 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538000325 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 585538000326 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 585538000327 metal-binding site 585538000328 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 585538000329 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 585538000330 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 585538000331 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 585538000332 dimer interface [polypeptide binding]; other site 585538000333 putative CheW interface [polypeptide binding]; other site 585538000334 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 585538000335 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 585538000336 active site 585538000337 metal binding site [ion binding]; metal-binding site 585538000338 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 585538000339 S-ribosylhomocysteinase; Provisional; Region: PRK02260 585538000340 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 585538000341 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 585538000342 homodimer interface [polypeptide binding]; other site 585538000343 substrate-cofactor binding pocket; other site 585538000344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585538000345 catalytic residue [active] 585538000346 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 585538000347 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 585538000348 dimer interface [polypeptide binding]; other site 585538000349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585538000350 catalytic residue [active] 585538000351 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 585538000352 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 585538000353 nucleotide binding site [chemical binding]; other site 585538000354 NEF interaction site [polypeptide binding]; other site 585538000355 SBD interface [polypeptide binding]; other site 585538000356 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 585538000357 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 585538000358 dimer interface [polypeptide binding]; other site 585538000359 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 585538000360 heat-inducible transcription repressor; Provisional; Region: PRK03911 585538000361 hypothetical protein; Provisional; Region: PRK05834 585538000362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 585538000363 flagellin B; Provisional; Region: PRK13588 585538000364 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 585538000365 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 585538000366 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 585538000367 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 585538000368 DNA topoisomerase I; Validated; Region: PRK05582 585538000369 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 585538000370 active site 585538000371 interdomain interaction site; other site 585538000372 putative metal-binding site [ion binding]; other site 585538000373 nucleotide binding site [chemical binding]; other site 585538000374 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 585538000375 domain I; other site 585538000376 DNA binding groove [nucleotide binding] 585538000377 phosphate binding site [ion binding]; other site 585538000378 domain II; other site 585538000379 domain III; other site 585538000380 nucleotide binding site [chemical binding]; other site 585538000381 catalytic site [active] 585538000382 domain IV; other site 585538000383 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 585538000384 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 585538000385 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 585538000386 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 585538000387 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 585538000388 FeS/SAM binding site; other site 585538000389 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 585538000390 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 585538000391 phosphoenolpyruvate synthase; Validated; Region: PRK06464 585538000392 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 585538000393 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 585538000394 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 585538000395 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 585538000396 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 585538000397 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 585538000398 active site 585538000399 dimer interface [polypeptide binding]; other site 585538000400 motif 1; other site 585538000401 motif 2; other site 585538000402 motif 3; other site 585538000403 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 585538000404 anticodon binding site; other site 585538000405 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 585538000406 translation initiation factor IF-3; Region: infC; TIGR00168 585538000407 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 585538000408 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 585538000409 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 585538000410 23S rRNA binding site [nucleotide binding]; other site 585538000411 L21 binding site [polypeptide binding]; other site 585538000412 L13 binding site [polypeptide binding]; other site 585538000413 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538000414 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 585538000415 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 585538000416 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 585538000417 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 585538000418 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 585538000419 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 585538000420 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 585538000421 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 585538000422 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 585538000423 catalytic triad [active] 585538000424 Uncharacterized conserved protein [Function unknown]; Region: COG1556 585538000425 iron-sulfur cluster-binding protein; Region: TIGR00273 585538000426 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 585538000427 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 585538000428 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 585538000429 Cysteine-rich domain; Region: CCG; pfam02754 585538000430 Cysteine-rich domain; Region: CCG; pfam02754 585538000431 L-lactate transport; Region: lctP; TIGR00795 585538000432 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 585538000433 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 585538000434 L-lactate permease; Region: Lactate_perm; pfam02652 585538000435 DNA glycosylase MutY; Provisional; Region: PRK13910 585538000436 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 585538000437 minor groove reading motif; other site 585538000438 helix-hairpin-helix signature motif; other site 585538000439 substrate binding pocket [chemical binding]; other site 585538000440 active site 585538000441 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 585538000442 DNA binding and oxoG recognition site [nucleotide binding] 585538000443 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 585538000444 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 585538000445 transmembrane helices; other site 585538000446 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 585538000447 Low-spin heme binding site [chemical binding]; other site 585538000448 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 585538000449 D-pathway; other site 585538000450 Putative water exit pathway; other site 585538000451 Binuclear center (active site) [active] 585538000452 K-pathway; other site 585538000453 Putative proton exit pathway; other site 585538000454 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 585538000455 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 585538000456 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 585538000457 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 585538000458 Cytochrome c; Region: Cytochrom_C; pfam00034 585538000459 Cytochrome c; Region: Cytochrom_C; pfam00034 585538000460 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 585538000461 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 585538000462 recombinase A; Provisional; Region: recA; PRK09354 585538000463 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 585538000464 hexamer interface [polypeptide binding]; other site 585538000465 Walker A motif; other site 585538000466 ATP binding site [chemical binding]; other site 585538000467 Walker B motif; other site 585538000468 enolase; Provisional; Region: eno; PRK00077 585538000469 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 585538000470 dimer interface [polypeptide binding]; other site 585538000471 metal binding site [ion binding]; metal-binding site 585538000472 substrate binding pocket [chemical binding]; other site 585538000473 AMIN domain; Region: AMIN; pfam11741 585538000474 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 585538000475 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 585538000476 ADP binding site [chemical binding]; other site 585538000477 magnesium binding site [ion binding]; other site 585538000478 putative shikimate binding site; other site 585538000479 Cache domain; Region: Cache_1; pfam02743 585538000480 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 585538000481 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 585538000482 Ligand binding site; other site 585538000483 metal-binding site 585538000484 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 585538000485 Sel1-like repeats; Region: SEL1; smart00671 585538000486 Sel1-like repeats; Region: SEL1; smart00671 585538000487 Sel1-like repeats; Region: SEL1; smart00671 585538000488 Sel1 repeat; Region: Sel1; cl02723 585538000489 Sel1-like repeats; Region: SEL1; smart00671 585538000490 Sel1-like repeats; Region: SEL1; smart00671 585538000491 hypothetical protein; Provisional; Region: PRK12378 585538000492 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 585538000493 dimer interface [polypeptide binding]; other site 585538000494 active site 585538000495 Schiff base residues; other site 585538000496 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 585538000497 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 585538000498 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 585538000499 dimer interface [polypeptide binding]; other site 585538000500 phosphorylation site [posttranslational modification] 585538000501 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 585538000502 ATP binding site [chemical binding]; other site 585538000503 Mg2+ binding site [ion binding]; other site 585538000504 G-X-G motif; other site 585538000505 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 585538000506 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 585538000507 active site 585538000508 phosphorylation site [posttranslational modification] 585538000509 intermolecular recognition site; other site 585538000510 dimerization interface [polypeptide binding]; other site 585538000511 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 585538000512 DNA binding site [nucleotide binding] 585538000513 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 585538000514 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 585538000515 Peptidase family U32; Region: Peptidase_U32; pfam01136 585538000516 peptide chain release factor 2; Region: prfB; TIGR00020 585538000517 This domain is found in peptide chain release factors; Region: PCRF; smart00937 585538000518 RF-1 domain; Region: RF-1; pfam00472 585538000519 potential frameshift: common BLAST hit: gi|308182346|ref|YP_003926473.1| molybdopterin biosynthesis protein 585538000520 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 585538000521 potential frameshift: common BLAST hit: gi|188526976|ref|YP_001909663.1| molybdopterin biosynthesis protein MoeA 585538000522 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 585538000523 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 585538000524 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 585538000525 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 585538000526 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 585538000527 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 585538000528 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 585538000529 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 585538000530 intersubunit interface [polypeptide binding]; other site 585538000531 active site 585538000532 zinc binding site [ion binding]; other site 585538000533 Na+ binding site [ion binding]; other site 585538000534 elongation factor P; Validated; Region: PRK00529 585538000535 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 585538000536 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 585538000537 RNA binding site [nucleotide binding]; other site 585538000538 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 585538000539 RNA binding site [nucleotide binding]; other site 585538000540 pseudaminic acid synthase; Region: PseI; TIGR03586 585538000541 NeuB family; Region: NeuB; pfam03102 585538000542 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 585538000543 NeuB binding interface [polypeptide binding]; other site 585538000544 putative substrate binding site [chemical binding]; other site 585538000545 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 585538000546 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 585538000547 Walker A/P-loop; other site 585538000548 ATP binding site [chemical binding]; other site 585538000549 Q-loop/lid; other site 585538000550 ABC transporter signature motif; other site 585538000551 Walker B; other site 585538000552 D-loop; other site 585538000553 H-loop/switch region; other site 585538000554 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 585538000555 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 585538000556 active site 585538000557 catalytic triad [active] 585538000558 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 585538000559 Colicin V production protein; Region: Colicin_V; pfam02674 585538000560 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 585538000561 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 585538000562 dimer interface [polypeptide binding]; other site 585538000563 putative anticodon binding site; other site 585538000564 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 585538000565 motif 1; other site 585538000566 active site 585538000567 motif 2; other site 585538000568 motif 3; other site 585538000569 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 585538000570 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 585538000571 dimer interface [polypeptide binding]; other site 585538000572 active site 585538000573 glycine-pyridoxal phosphate binding site [chemical binding]; other site 585538000574 folate binding site [chemical binding]; other site 585538000575 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 585538000576 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 585538000577 Protein of unknown function DUF262; Region: DUF262; pfam03235 585538000578 Uncharacterized conserved protein [Function unknown]; Region: COG1479 585538000579 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 585538000580 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 585538000581 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 585538000582 PLD-like domain; Region: PLDc_2; pfam13091 585538000583 putative active site [active] 585538000584 catalytic site [active] 585538000585 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 585538000586 PLD-like domain; Region: PLDc_2; pfam13091 585538000587 putative active site [active] 585538000588 catalytic site [active] 585538000589 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 585538000590 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 585538000591 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 585538000592 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 585538000593 L-aspartate oxidase; Provisional; Region: PRK06175 585538000594 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 585538000595 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 585538000596 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 585538000597 Iron-sulfur protein interface; other site 585538000598 proximal heme binding site [chemical binding]; other site 585538000599 distal heme binding site [chemical binding]; other site 585538000600 dimer interface [polypeptide binding]; other site 585538000601 triosephosphate isomerase; Provisional; Region: PRK14567 585538000602 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 585538000603 substrate binding site [chemical binding]; other site 585538000604 dimer interface [polypeptide binding]; other site 585538000605 catalytic triad [active] 585538000606 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 585538000607 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 585538000608 NAD binding site [chemical binding]; other site 585538000609 homotetramer interface [polypeptide binding]; other site 585538000610 homodimer interface [polypeptide binding]; other site 585538000611 substrate binding site [chemical binding]; other site 585538000612 active site 585538000613 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 585538000614 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 585538000615 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 585538000616 trimer interface [polypeptide binding]; other site 585538000617 active site 585538000618 UDP-GlcNAc binding site [chemical binding]; other site 585538000619 lipid binding site [chemical binding]; lipid-binding site 585538000620 S-adenosylmethionine synthetase; Validated; Region: PRK05250 585538000621 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 585538000622 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 585538000623 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 585538000624 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 585538000625 active site 585538000626 multimer interface [polypeptide binding]; other site 585538000627 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 585538000628 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 585538000629 fatty acid/phospholipid synthesis protein PlsX; Region: plsX; TIGR00182 585538000630 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 585538000631 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 585538000632 dimer interface [polypeptide binding]; other site 585538000633 active site 585538000634 CoA binding pocket [chemical binding]; other site 585538000635 AAA ATPase domain; Region: AAA_15; pfam13175 585538000636 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538000637 Walker B; other site 585538000638 D-loop; other site 585538000639 H-loop/switch region; other site 585538000640 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538000641 AAA domain; Region: AAA_21; pfam13304 585538000642 Walker A/P-loop; other site 585538000643 ATP binding site [chemical binding]; other site 585538000644 antiporter inner membrane protein; Provisional; Region: PRK11670 585538000645 Domain of unknown function DUF59; Region: DUF59; cl00941 585538000646 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 585538000647 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 585538000648 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 585538000649 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 585538000650 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 585538000651 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 585538000652 heat shock protein 90; Provisional; Region: PRK05218 585538000653 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 585538000654 ATP binding site [chemical binding]; other site 585538000655 Mg2+ binding site [ion binding]; other site 585538000656 G-X-G motif; other site 585538000657 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 585538000658 Sel1-like repeats; Region: SEL1; smart00671 585538000659 Sel1-like repeats; Region: SEL1; smart00671 585538000660 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 585538000661 TPR motif; other site 585538000662 binding surface 585538000663 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 585538000664 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 585538000665 metal binding site [ion binding]; metal-binding site 585538000666 dimer interface [polypeptide binding]; other site 585538000667 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 585538000668 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585538000669 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 585538000670 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 585538000671 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 585538000672 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 585538000673 transmembrane helices; other site 585538000674 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 585538000675 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 585538000676 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 585538000677 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 585538000678 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 585538000679 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 585538000680 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 585538000681 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 585538000682 substrate binding site [chemical binding]; other site 585538000683 Helix-turn-helix domain; Region: HTH_28; pfam13518 585538000684 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 585538000685 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 585538000686 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585538000687 catalytic residue [active] 585538000688 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 585538000689 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 585538000690 trimerization site [polypeptide binding]; other site 585538000691 active site 585538000692 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 585538000693 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 585538000694 DNA repair protein RadA; Region: sms; TIGR00416 585538000695 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 585538000696 Walker A motif/ATP binding site; other site 585538000697 ATP binding site [chemical binding]; other site 585538000698 Walker B motif; other site 585538000699 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 585538000700 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 585538000701 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 585538000702 SelR domain; Region: SelR; pfam01641 585538000703 Predicted permeases [General function prediction only]; Region: COG0730 585538000704 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538000705 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538000706 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 585538000707 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 585538000708 Ligand binding site; other site 585538000709 oligomer interface; other site 585538000710 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 585538000711 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 585538000712 hypothetical protein; Provisional; Region: PRK04081 585538000713 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 585538000714 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 585538000715 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 585538000716 binding surface 585538000717 TPR motif; other site 585538000718 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 585538000719 binding surface 585538000720 TPR motif; other site 585538000721 Sel1-like repeats; Region: SEL1; smart00671 585538000722 Sel1-like repeats; Region: SEL1; smart00671 585538000723 Cytochrome c; Region: Cytochrom_C; cl11414 585538000724 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 585538000725 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 585538000726 domain interfaces; other site 585538000727 active site 585538000728 prolyl-tRNA synthetase, family II; Region: proS_fam_II; TIGR00409 585538000729 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 585538000730 dimer interface [polypeptide binding]; other site 585538000731 motif 1; other site 585538000732 active site 585538000733 motif 2; other site 585538000734 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 585538000735 putative deacylase active site [active] 585538000736 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 585538000737 active site 585538000738 motif 3; other site 585538000739 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 585538000740 anticodon binding site; other site 585538000741 glutamyl-tRNA reductase; Region: hemA; TIGR01035 585538000742 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 585538000743 tRNA; other site 585538000744 putative tRNA binding site [nucleotide binding]; other site 585538000745 putative NADP binding site [chemical binding]; other site 585538000746 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 585538000747 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 585538000748 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 585538000749 substrate binding pocket [chemical binding]; other site 585538000750 chain length determination region; other site 585538000751 substrate-Mg2+ binding site; other site 585538000752 catalytic residues [active] 585538000753 aspartate-rich region 1; other site 585538000754 active site lid residues [active] 585538000755 aspartate-rich region 2; other site 585538000756 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 585538000757 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 585538000758 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 585538000759 dimerization interface [polypeptide binding]; other site 585538000760 DPS ferroxidase diiron center [ion binding]; other site 585538000761 ion pore; other site 585538000762 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 585538000763 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 585538000764 dimer interface [polypeptide binding]; other site 585538000765 phosphorylation site [posttranslational modification] 585538000766 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 585538000767 ATP binding site [chemical binding]; other site 585538000768 Mg2+ binding site [ion binding]; other site 585538000769 G-X-G motif; other site 585538000770 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 585538000771 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 585538000772 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 585538000773 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 585538000774 ATP binding site [chemical binding]; other site 585538000775 Mg++ binding site [ion binding]; other site 585538000776 motif III; other site 585538000777 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 585538000778 nucleotide binding region [chemical binding]; other site 585538000779 ATP-binding site [chemical binding]; other site 585538000780 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 585538000781 SPFH domain / Band 7 family; Region: Band_7; pfam01145 585538000782 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 585538000783 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 585538000784 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585538000785 Walker A/P-loop; other site 585538000786 ATP binding site [chemical binding]; other site 585538000787 Q-loop/lid; other site 585538000788 ABC transporter signature motif; other site 585538000789 Walker B; other site 585538000790 D-loop; other site 585538000791 H-loop/switch region; other site 585538000792 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585538000793 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585538000794 Walker A/P-loop; other site 585538000795 ATP binding site [chemical binding]; other site 585538000796 Q-loop/lid; other site 585538000797 ABC transporter signature motif; other site 585538000798 Walker B; other site 585538000799 D-loop; other site 585538000800 H-loop/switch region; other site 585538000801 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585538000802 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 585538000803 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 585538000804 dimer interface [polypeptide binding]; other site 585538000805 conserved gate region; other site 585538000806 putative PBP binding loops; other site 585538000807 ABC-ATPase subunit interface; other site 585538000808 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538000809 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538000810 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 585538000811 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 585538000812 GDP-binding site [chemical binding]; other site 585538000813 ACT binding site; other site 585538000814 IMP binding site; other site 585538000815 Flagellar FliJ protein; Region: FliJ; pfam02050 585538000816 Uncharacterized conserved protein [Function unknown]; Region: COG3334 585538000817 RIP metalloprotease RseP; Region: TIGR00054 585538000818 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 585538000819 active site 585538000820 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 585538000821 protein binding site [polypeptide binding]; other site 585538000822 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 585538000823 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 585538000824 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 585538000825 generic binding surface II; other site 585538000826 generic binding surface I; other site 585538000827 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 585538000828 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538000829 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538000830 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 585538000831 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538000832 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 585538000833 Clp amino terminal domain; Region: Clp_N; pfam02861 585538000834 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 585538000835 Walker A motif; other site 585538000836 ATP binding site [chemical binding]; other site 585538000837 Walker B motif; other site 585538000838 arginine finger; other site 585538000839 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 585538000840 Walker A motif; other site 585538000841 ATP binding site [chemical binding]; other site 585538000842 Walker B motif; other site 585538000843 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 585538000844 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 585538000845 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 585538000846 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 585538000847 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 585538000848 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 585538000849 active site 585538000850 chlorohydrolase; Provisional; Region: PRK08418 585538000851 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 585538000852 active site 585538000853 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 585538000854 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 585538000855 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 585538000856 FeS/SAM binding site; other site 585538000857 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 585538000858 putative acyl-acceptor binding pocket; other site 585538000859 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 585538000860 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 585538000861 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 585538000862 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 585538000863 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 585538000864 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 585538000865 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 585538000866 putative active site [active] 585538000867 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 585538000868 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 585538000869 putative acyl-acceptor binding pocket; other site 585538000870 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 585538000871 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 585538000872 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 585538000873 TrkA-C domain; Region: TrkA_C; pfam02080 585538000874 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 585538000875 active site 585538000876 dimer interface [polypeptide binding]; other site 585538000877 metal binding site [ion binding]; metal-binding site 585538000878 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 585538000879 Mechanosensitive ion channel; Region: MS_channel; pfam00924 585538000880 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 585538000881 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 585538000882 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 585538000883 FeS/SAM binding site; other site 585538000884 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 585538000885 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 585538000886 Walker A motif; other site 585538000887 ATP binding site [chemical binding]; other site 585538000888 Walker B motif; other site 585538000889 arginine finger; other site 585538000890 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 585538000891 Vacuolating cyotoxin; Region: VacA; pfam02691 585538000892 potential frameshift: common BLAST hit: gi|188527095|ref|YP_001909782.1| toxin-like outer membrane protein 585538000893 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 585538000894 potential frameshift: common BLAST hit: gi|308182463|ref|YP_003926590.1| toxin-like outer membrane protein 585538000895 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 585538000896 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 585538000897 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 585538000898 potential frameshift: common BLAST hit: gi|210134487|ref|YP_002300926.1| vacuolating cytotoxin VacA-like protein 585538000899 Autotransporter beta-domain; Region: Autotransporter; pfam03797 585538000900 diaminopimelate decarboxylase; Region: lysA; TIGR01048 585538000901 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 585538000902 active site 585538000903 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 585538000904 substrate binding site [chemical binding]; other site 585538000905 catalytic residues [active] 585538000906 dimer interface [polypeptide binding]; other site 585538000907 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 585538000908 Uncharacterized conserved protein [Function unknown]; Region: COG4866 585538000909 aminodeoxychorismate synthase; Provisional; Region: PRK07508 585538000910 chorismate binding enzyme; Region: Chorismate_bind; cl10555 585538000911 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 585538000912 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 585538000913 substrate-cofactor binding pocket; other site 585538000914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585538000915 catalytic residue [active] 585538000916 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 585538000917 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 585538000918 multimer interface [polypeptide binding]; other site 585538000919 active site 585538000920 catalytic triad [active] 585538000921 dimer interface [polypeptide binding]; other site 585538000922 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 585538000923 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 585538000924 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 585538000925 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 585538000926 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 585538000927 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 585538000928 peptide binding site [polypeptide binding]; other site 585538000929 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 585538000930 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 585538000931 dimer interface [polypeptide binding]; other site 585538000932 conserved gate region; other site 585538000933 putative PBP binding loops; other site 585538000934 ABC-ATPase subunit interface; other site 585538000935 dipeptide transporter; Provisional; Region: PRK10913 585538000936 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 585538000937 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 585538000938 dimer interface [polypeptide binding]; other site 585538000939 conserved gate region; other site 585538000940 putative PBP binding loops; other site 585538000941 ABC-ATPase subunit interface; other site 585538000942 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585538000943 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 585538000944 Walker A/P-loop; other site 585538000945 ATP binding site [chemical binding]; other site 585538000946 Q-loop/lid; other site 585538000947 ABC transporter signature motif; other site 585538000948 Walker B; other site 585538000949 D-loop; other site 585538000950 H-loop/switch region; other site 585538000951 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585538000952 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 585538000953 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585538000954 Walker A/P-loop; other site 585538000955 ATP binding site [chemical binding]; other site 585538000956 Q-loop/lid; other site 585538000957 ABC transporter signature motif; other site 585538000958 Walker B; other site 585538000959 D-loop; other site 585538000960 H-loop/switch region; other site 585538000961 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 585538000962 GTPase CgtA; Reviewed; Region: obgE; PRK12299 585538000963 GTP1/OBG; Region: GTP1_OBG; pfam01018 585538000964 Obg GTPase; Region: Obg; cd01898 585538000965 G1 box; other site 585538000966 GTP/Mg2+ binding site [chemical binding]; other site 585538000967 Switch I region; other site 585538000968 G2 box; other site 585538000969 G3 box; other site 585538000970 Switch II region; other site 585538000971 G4 box; other site 585538000972 G5 box; other site 585538000973 Alginate lyase; Region: Alginate_lyase; pfam05426 585538000974 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 585538000975 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 585538000976 inhibitor-cofactor binding pocket; inhibition site 585538000977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585538000978 catalytic residue [active] 585538000979 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 585538000980 Predicted amidohydrolase [General function prediction only]; Region: COG0388 585538000981 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 585538000982 active site 585538000983 catalytic triad [active] 585538000984 dimer interface [polypeptide binding]; other site 585538000985 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 585538000986 active site 585538000987 catalytic site [active] 585538000988 Zn binding site [ion binding]; other site 585538000989 tetramer interface [polypeptide binding]; other site 585538000990 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 585538000991 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 585538000992 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538000993 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 585538000994 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 585538000995 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 585538000996 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 585538000997 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585538000998 putative substrate translocation pore; other site 585538000999 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 585538001000 hexamer interface [polypeptide binding]; other site 585538001001 active site 2 [active] 585538001002 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 585538001003 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 585538001004 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 585538001005 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 585538001006 arginyl-tRNA synthetase; Region: argS; TIGR00456 585538001007 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 585538001008 active site 585538001009 HIGH motif; other site 585538001010 KMSK motif region; other site 585538001011 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 585538001012 tRNA binding surface [nucleotide binding]; other site 585538001013 anticodon binding site; other site 585538001014 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 585538001015 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 585538001016 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 585538001017 catalytic site [active] 585538001018 G-X2-G-X-G-K; other site 585538001019 putative inner membrane protein translocase component YidC; Validated; Region: PRK00247 585538001020 nuclease NucT; Provisional; Region: PRK13912 585538001021 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 585538001022 putative active site [active] 585538001023 catalytic site [active] 585538001024 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538001025 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 585538001026 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 585538001027 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 585538001028 ligand binding site; other site 585538001029 tetramer interface; other site 585538001030 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 585538001031 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 585538001032 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 585538001033 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 585538001034 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 585538001035 NAD synthetase; Provisional; Region: PRK13980 585538001036 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 585538001037 homodimer interface [polypeptide binding]; other site 585538001038 NAD binding pocket [chemical binding]; other site 585538001039 ATP binding pocket [chemical binding]; other site 585538001040 Mg binding site [ion binding]; other site 585538001041 active-site loop [active] 585538001042 ketol-acid reductoisomerase; Provisional; Region: PRK05479 585538001043 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 585538001044 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 585538001045 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 585538001046 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 585538001047 Switch I; other site 585538001048 Switch II; other site 585538001049 cell division topological specificity factor MinE; Region: minE; TIGR01215 585538001050 DNA protecting protein DprA; Region: dprA; TIGR00732 585538001051 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 585538001052 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 585538001053 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 585538001054 Sel1-like repeats; Region: SEL1; smart00671 585538001055 Sel1-like repeats; Region: SEL1; smart00671 585538001056 chlorohydrolase; Provisional; Region: PRK07213 585538001057 catalytic residue [active] 585538001058 Phage lysozyme; Region: Phage_lysozyme; pfam00959 585538001059 Predicted membrane protein [Function unknown]; Region: COG3326 585538001060 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 585538001061 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 585538001062 active site 585538001063 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 585538001064 DHH family; Region: DHH; pfam01368 585538001065 DHHA1 domain; Region: DHHA1; pfam02272 585538001066 CTP synthetase; Validated; Region: pyrG; PRK05380 585538001067 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 585538001068 Catalytic site [active] 585538001069 active site 585538001070 UTP binding site [chemical binding]; other site 585538001071 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 585538001072 active site 585538001073 putative oxyanion hole; other site 585538001074 catalytic triad [active] 585538001075 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 585538001076 active site 585538001077 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 585538001078 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 585538001079 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 585538001080 flagellar motor switch protein FliG; Region: fliG; TIGR00207 585538001081 FliG C-terminal domain; Region: FliG_C; pfam01706 585538001082 flagellar assembly protein H; Validated; Region: fliH; PRK06669 585538001083 Flagellar assembly protein FliH; Region: FliH; pfam02108 585538001084 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 585538001085 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 585538001086 TPP-binding site; other site 585538001087 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 585538001088 PYR/PP interface [polypeptide binding]; other site 585538001089 dimer interface [polypeptide binding]; other site 585538001090 TPP binding site [chemical binding]; other site 585538001091 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 585538001092 GTP-binding protein LepA; Provisional; Region: PRK05433 585538001093 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 585538001094 G1 box; other site 585538001095 putative GEF interaction site [polypeptide binding]; other site 585538001096 GTP/Mg2+ binding site [chemical binding]; other site 585538001097 Switch I region; other site 585538001098 G2 box; other site 585538001099 G3 box; other site 585538001100 Switch II region; other site 585538001101 G4 box; other site 585538001102 G5 box; other site 585538001103 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 585538001104 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 585538001105 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 585538001106 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 585538001107 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 585538001108 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 585538001109 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 585538001110 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 585538001111 putative substrate translocation pore; other site 585538001112 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 585538001113 TspO/MBR family; Region: TspO_MBR; cl01379 585538001114 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 585538001115 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 585538001116 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 585538001117 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 585538001118 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 585538001119 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 585538001120 TPP-binding site [chemical binding]; other site 585538001121 dimer interface [polypeptide binding]; other site 585538001122 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 585538001123 PYR/PP interface [polypeptide binding]; other site 585538001124 dimer interface [polypeptide binding]; other site 585538001125 TPP binding site [chemical binding]; other site 585538001126 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 585538001127 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 585538001128 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 585538001129 active site 585538001130 Riboflavin kinase; Region: Flavokinase; smart00904 585538001131 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 585538001132 hemolysin TlyA family protein; Region: tly; TIGR00478 585538001133 RNA binding surface [nucleotide binding]; other site 585538001134 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 585538001135 S-adenosylmethionine binding site [chemical binding]; other site 585538001136 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 585538001137 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 585538001138 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 585538001139 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 585538001140 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 585538001141 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 585538001142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538001143 Walker A/P-loop; other site 585538001144 ATP binding site [chemical binding]; other site 585538001145 Q-loop/lid; other site 585538001146 ABC transporter signature motif; other site 585538001147 Walker B; other site 585538001148 D-loop; other site 585538001149 H-loop/switch region; other site 585538001150 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 585538001151 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 585538001152 Restriction endonuclease; Region: Mrr_cat; pfam04471 585538001153 Predicted ATPases [General function prediction only]; Region: COG1106 585538001154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538001155 Walker A/P-loop; other site 585538001156 ATP binding site [chemical binding]; other site 585538001157 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 585538001158 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 585538001159 active site 585538001160 Zn binding site [ion binding]; other site 585538001161 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 585538001162 metal-binding site [ion binding] 585538001163 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 585538001164 metal-binding site [ion binding] 585538001165 fungal transcription factor regulatory middle homology region; Region: fungal_TF_MHR; cl17093 585538001166 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 585538001167 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 585538001168 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 585538001169 Soluble P-type ATPase [General function prediction only]; Region: COG4087 585538001170 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 585538001171 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 585538001172 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 585538001173 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 585538001174 Walker A motif; other site 585538001175 ATP binding site [chemical binding]; other site 585538001176 Walker B motif; other site 585538001177 arginine finger; other site 585538001178 Peptidase family M41; Region: Peptidase_M41; pfam01434 585538001179 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 585538001180 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 585538001181 S-adenosylmethionine binding site [chemical binding]; other site 585538001182 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 585538001183 Response regulator receiver domain; Region: Response_reg; pfam00072 585538001184 active site 585538001185 phosphorylation site [posttranslational modification] 585538001186 intermolecular recognition site; other site 585538001187 dimerization interface [polypeptide binding]; other site 585538001188 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538001189 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 585538001190 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 585538001191 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 585538001192 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 585538001193 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 585538001194 sec-independent translocase; Provisional; Region: PRK04098 585538001195 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 585538001196 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 585538001197 Walker A motif; other site 585538001198 ATP binding site [chemical binding]; other site 585538001199 Walker B motif; other site 585538001200 arginine finger; other site 585538001201 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 585538001202 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 585538001203 oligomerization interface [polypeptide binding]; other site 585538001204 active site 585538001205 metal binding site [ion binding]; metal-binding site 585538001206 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538001207 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538001208 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 585538001209 Peptidase family M23; Region: Peptidase_M23; pfam01551 585538001210 septum formation inhibitor; Reviewed; Region: minC; PRK00556 585538001211 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 585538001212 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 585538001213 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 585538001214 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 585538001215 homoserine kinase; Region: thrB; TIGR00191 585538001216 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 585538001217 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 585538001218 putative RNA binding cleft [nucleotide binding]; other site 585538001219 translation initiation factor IF-2; Region: IF-2; TIGR00487 585538001220 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 585538001221 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 585538001222 G1 box; other site 585538001223 putative GEF interaction site [polypeptide binding]; other site 585538001224 GTP/Mg2+ binding site [chemical binding]; other site 585538001225 Switch I region; other site 585538001226 G2 box; other site 585538001227 G3 box; other site 585538001228 Switch II region; other site 585538001229 G4 box; other site 585538001230 G5 box; other site 585538001231 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 585538001232 Translation-initiation factor 2; Region: IF-2; pfam11987 585538001233 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 585538001234 Ribosome-binding factor A; Region: RBFA; cl00542 585538001235 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 585538001236 Sm and related proteins; Region: Sm_like; cl00259 585538001237 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 585538001238 putative oligomer interface [polypeptide binding]; other site 585538001239 putative RNA binding site [nucleotide binding]; other site 585538001240 acetyl-CoA synthetase; Provisional; Region: PRK00174 585538001241 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 585538001242 active site 585538001243 CoA binding site [chemical binding]; other site 585538001244 acyl-activating enzyme (AAE) consensus motif; other site 585538001245 AMP binding site [chemical binding]; other site 585538001246 acetate binding site [chemical binding]; other site 585538001247 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 585538001248 putative active site [active] 585538001249 putative metal binding site [ion binding]; other site 585538001250 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 585538001251 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 585538001252 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 585538001253 active site 585538001254 intermolecular recognition site; other site 585538001255 dimerization interface [polypeptide binding]; other site 585538001256 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 585538001257 DNA binding site [nucleotide binding] 585538001258 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 585538001259 DHH family; Region: DHH; pfam01368 585538001260 flagellar biosynthesis protein FlhA; Region: FlhA; TIGR01398 585538001261 FHIPEP family; Region: FHIPEP; pfam00771 585538001262 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 585538001263 16S/18S rRNA binding site [nucleotide binding]; other site 585538001264 S13e-L30e interaction site [polypeptide binding]; other site 585538001265 25S rRNA binding site [nucleotide binding]; other site 585538001266 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 585538001267 O-Antigen ligase; Region: Wzy_C; pfam04932 585538001268 Dehydroquinase class II; Region: DHquinase_II; pfam01220 585538001269 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 585538001270 trimer interface [polypeptide binding]; other site 585538001271 active site 585538001272 dimer interface [polypeptide binding]; other site 585538001273 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 585538001274 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 585538001275 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 585538001276 active site 585538001277 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 585538001278 catalytic center binding site [active] 585538001279 ATP binding site [chemical binding]; other site 585538001280 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 585538001281 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 585538001282 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 585538001283 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 585538001284 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 585538001285 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 585538001286 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 585538001287 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 585538001288 DNA binding residues [nucleotide binding] 585538001289 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 585538001290 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 585538001291 flagellar motor switch protein FliY; Validated; Region: PRK08432 585538001292 flagellar motor switch protein FliN; Region: fliN; TIGR02480 585538001293 Domain of unknown function (DUF386); Region: DUF386; cl01047 585538001294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 585538001295 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 585538001296 metal binding site 2 [ion binding]; metal-binding site 585538001297 putative DNA binding helix; other site 585538001298 metal binding site 1 [ion binding]; metal-binding site 585538001299 dimer interface [polypeptide binding]; other site 585538001300 structural Zn2+ binding site [ion binding]; other site 585538001301 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 585538001302 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 585538001303 Walker A motif; other site 585538001304 ATP binding site [chemical binding]; other site 585538001305 Walker B motif; other site 585538001306 arginine finger; other site 585538001307 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 585538001308 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 585538001309 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 585538001310 DNA binding residues [nucleotide binding] 585538001311 putative dimer interface [polypeptide binding]; other site 585538001312 chaperone protein DnaJ; Provisional; Region: PRK14299 585538001313 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 585538001314 HSP70 interaction site [polypeptide binding]; other site 585538001315 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 585538001316 substrate binding site [polypeptide binding]; other site 585538001317 dimer interface [polypeptide binding]; other site 585538001318 5'-3' exonuclease; Provisional; Region: PRK14976 585538001319 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 585538001320 putative active site [active] 585538001321 Helix-hairpin-helix class 2 (Pol1 family) motifs; Region: HhH2; smart00279 585538001322 DNA binding site [nucleotide binding] 585538001323 metal binding site [ion binding]; metal-binding site 585538001324 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 585538001325 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 585538001326 active site 585538001327 dimerization interface [polypeptide binding]; other site 585538001328 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 585538001329 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 585538001330 substrate binding site; other site 585538001331 dimer interface; other site 585538001332 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 585538001333 homotrimer interaction site [polypeptide binding]; other site 585538001334 zinc binding site [ion binding]; other site 585538001335 CDP-binding sites; other site 585538001336 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 585538001337 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 585538001338 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 585538001339 protein binding site [polypeptide binding]; other site 585538001340 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 585538001341 protein binding site [polypeptide binding]; other site 585538001342 S-methylmethionine transporter; Provisional; Region: PRK11387 585538001343 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 585538001344 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 585538001345 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 585538001346 putative NAD(P) binding site [chemical binding]; other site 585538001347 active site 585538001348 dihydrodipicolinate synthase; Region: dapA; TIGR00674 585538001349 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 585538001350 dimer interface [polypeptide binding]; other site 585538001351 active site 585538001352 catalytic residue [active] 585538001353 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 585538001354 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 585538001355 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 585538001356 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 585538001357 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 585538001358 quinone interaction residues [chemical binding]; other site 585538001359 active site 585538001360 catalytic residues [active] 585538001361 FMN binding site [chemical binding]; other site 585538001362 substrate binding site [chemical binding]; other site 585538001363 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 585538001364 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 585538001365 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 585538001366 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 585538001367 putative domain interface [polypeptide binding]; other site 585538001368 putative active site [active] 585538001369 catalytic site [active] 585538001370 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 585538001371 putative active site [active] 585538001372 putative domain interface [polypeptide binding]; other site 585538001373 catalytic site [active] 585538001374 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 585538001375 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 585538001376 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 585538001377 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 585538001378 Methyltransferase domain; Region: Methyltransf_26; pfam13659 585538001379 potential frameshift: common BLAST hit: gi|188527248|ref|YP_001909935.1| type I restriction enzyme R protein HsdR 585538001380 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 585538001381 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 585538001382 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 585538001383 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 585538001384 ATP binding site [chemical binding]; other site 585538001385 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 585538001386 putative Mg++ binding site [ion binding]; other site 585538001387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 585538001388 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 585538001389 putative metal binding site [ion binding]; other site 585538001390 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 585538001391 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 585538001392 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 585538001393 active site 585538001394 Zn binding site [ion binding]; other site 585538001395 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 585538001396 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 585538001397 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538001398 potential frameshift: common BLAST hit: gi|188527259|ref|YP_001909946.1| molybdenum ABC transporter ModA 585538001399 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 585538001400 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 585538001401 potential frameshift: common BLAST hit: gi|308182621|ref|YP_003926748.1| molybdenum ABC transporter ModB 585538001402 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 585538001403 dimer interface [polypeptide binding]; other site 585538001404 conserved gate region; other site 585538001405 ABC-ATPase subunit interface; other site 585538001406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 585538001407 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 585538001408 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538001409 Walker A/P-loop; other site 585538001410 ATP binding site [chemical binding]; other site 585538001411 Q-loop/lid; other site 585538001412 ABC transporter signature motif; other site 585538001413 Walker B; other site 585538001414 D-loop; other site 585538001415 H-loop/switch region; other site 585538001416 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 585538001417 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 585538001418 active site 585538001419 HIGH motif; other site 585538001420 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 585538001421 active site 585538001422 KMSKS motif; other site 585538001423 potential frameshift: common BLAST hit: gi|308183075|ref|YP_003927202.1| outer membrane protein (omp22) 585538001424 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538001425 Helix-turn-helix domain; Region: HTH_17; pfam12728 585538001426 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 585538001427 Methyltransferase domain; Region: Methyltransf_26; pfam13659 585538001428 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 585538001429 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 585538001430 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 585538001431 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 585538001432 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 585538001433 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 585538001434 G1 box; other site 585538001435 putative GEF interaction site [polypeptide binding]; other site 585538001436 GTP/Mg2+ binding site [chemical binding]; other site 585538001437 Switch I region; other site 585538001438 G2 box; other site 585538001439 G3 box; other site 585538001440 Switch II region; other site 585538001441 G4 box; other site 585538001442 G5 box; other site 585538001443 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 585538001444 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 585538001445 potential frameshift: common BLAST hit: gi|308182629|ref|YP_003926756.1| type II adenine specific DNA methyltransferase 585538001446 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 585538001447 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 585538001448 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 585538001449 GIY-YIG motif/motif A; other site 585538001450 DNA binding site [nucleotide binding] 585538001451 active site 585538001452 catalytic site [active] 585538001453 metal binding site [ion binding]; metal-binding site 585538001454 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 585538001455 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 585538001456 putative heme binding pocket [chemical binding]; other site 585538001457 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 585538001458 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 585538001459 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 585538001460 Uncharacterized conserved protein [Function unknown]; Region: COG1432 585538001461 LabA_like proteins; Region: LabA_like; cd06167 585538001462 putative metal binding site [ion binding]; other site 585538001463 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 585538001464 active site 585538001465 putative DNA-binding cleft [nucleotide binding]; other site 585538001466 dimer interface [polypeptide binding]; other site 585538001467 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 585538001468 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 585538001469 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 585538001470 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 585538001471 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 585538001472 tetramer interface [polypeptide binding]; other site 585538001473 heme binding pocket [chemical binding]; other site 585538001474 NADPH binding site [chemical binding]; other site 585538001475 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 585538001476 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 585538001477 PhnA protein; Region: PhnA; pfam03831 585538001478 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 585538001479 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 585538001480 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 585538001481 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 585538001482 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 585538001483 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 585538001484 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 585538001485 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 585538001486 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 585538001487 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 585538001488 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 585538001489 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 585538001490 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 585538001491 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 585538001492 trimer interface [polypeptide binding]; other site 585538001493 active site 585538001494 PQQ-like domain; Region: PQQ_2; pfam13360 585538001495 pantothenate kinase; Reviewed; Region: PRK13333 585538001496 Uncharacterized conserved protein [Function unknown]; Region: COG2836 585538001497 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 585538001498 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 585538001499 active site 585538001500 motif I; other site 585538001501 motif II; other site 585538001502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 585538001503 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 585538001504 NAD(P) binding site [chemical binding]; other site 585538001505 active site 585538001506 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 585538001507 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 585538001508 putative ribose interaction site [chemical binding]; other site 585538001509 putative ADP binding site [chemical binding]; other site 585538001510 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 585538001511 active site 585538001512 nucleotide binding site [chemical binding]; other site 585538001513 HIGH motif; other site 585538001514 KMSKS motif; other site 585538001515 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 585538001516 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 585538001517 dimer interface [polypeptide binding]; other site 585538001518 active site 585538001519 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 585538001520 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 585538001521 active site 585538001522 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 585538001523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538001524 Walker A/P-loop; other site 585538001525 ATP binding site [chemical binding]; other site 585538001526 Q-loop/lid; other site 585538001527 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 585538001528 ABC transporter; Region: ABC_tran_2; pfam12848 585538001529 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 585538001530 Protein of unknown function (DUF511); Region: DUF511; cl01114 585538001531 Protein of unknown function (DUF511); Region: DUF511; cl01114 585538001532 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 585538001533 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 585538001534 active site 585538001535 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 585538001536 HsdM N-terminal domain; Region: HsdM_N; pfam12161 585538001537 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 585538001538 S-adenosylmethionine binding site [chemical binding]; other site 585538001539 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 585538001540 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 585538001541 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 585538001542 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 585538001543 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 585538001544 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 585538001545 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 585538001546 ATP binding site [chemical binding]; other site 585538001547 putative Mg++ binding site [ion binding]; other site 585538001548 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 585538001549 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 585538001550 substrate binding site [chemical binding]; other site 585538001551 multimerization interface [polypeptide binding]; other site 585538001552 ATP binding site [chemical binding]; other site 585538001553 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 585538001554 dimer interface [polypeptide binding]; other site 585538001555 substrate binding site [chemical binding]; other site 585538001556 ATP binding site [chemical binding]; other site 585538001557 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 585538001558 thiamine phosphate binding site [chemical binding]; other site 585538001559 active site 585538001560 pyrophosphate binding site [ion binding]; other site 585538001561 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 585538001562 Flavoprotein; Region: Flavoprotein; pfam02441 585538001563 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 585538001564 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 585538001565 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 585538001566 NAD(P) binding site [chemical binding]; other site 585538001567 homodimer interface [polypeptide binding]; other site 585538001568 substrate binding site [chemical binding]; other site 585538001569 active site 585538001570 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 585538001571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 585538001572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 585538001573 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 585538001574 IHF dimer interface [polypeptide binding]; other site 585538001575 IHF - DNA interface [nucleotide binding]; other site 585538001576 GTP-binding protein Der; Reviewed; Region: PRK00093 585538001577 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 585538001578 G1 box; other site 585538001579 GTP/Mg2+ binding site [chemical binding]; other site 585538001580 Switch I region; other site 585538001581 G2 box; other site 585538001582 Switch II region; other site 585538001583 G3 box; other site 585538001584 G4 box; other site 585538001585 G5 box; other site 585538001586 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 585538001587 G1 box; other site 585538001588 GTP/Mg2+ binding site [chemical binding]; other site 585538001589 Switch I region; other site 585538001590 G2 box; other site 585538001591 G3 box; other site 585538001592 Switch II region; other site 585538001593 G4 box; other site 585538001594 G5 box; other site 585538001595 spermidine synthase; Provisional; Region: speE; PRK00536 585538001596 spermidine synthase; Provisional; Region: PRK00811 585538001597 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 585538001598 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 585538001599 CoA-binding site [chemical binding]; other site 585538001600 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 585538001601 indole acetimide hydrolase; Validated; Region: PRK07488 585538001602 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 585538001603 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 585538001604 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 585538001605 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 585538001606 active site 585538001607 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 585538001608 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 585538001609 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 585538001610 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 585538001611 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 585538001612 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 585538001613 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 585538001614 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585538001615 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 585538001616 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 585538001617 catalytic residues [active] 585538001618 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 585538001619 homoserine dehydrogenase; Provisional; Region: PRK06349 585538001620 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 585538001621 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 585538001622 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 585538001623 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 585538001624 GIY-YIG motif/motif A; other site 585538001625 active site 585538001626 catalytic site [active] 585538001627 putative DNA binding site [nucleotide binding]; other site 585538001628 metal binding site [ion binding]; metal-binding site 585538001629 UvrB/uvrC motif; Region: UVR; pfam02151 585538001630 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 585538001631 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 585538001632 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538001633 Walker A/P-loop; other site 585538001634 ATP binding site [chemical binding]; other site 585538001635 Q-loop/lid; other site 585538001636 ABC transporter signature motif; other site 585538001637 Walker B; other site 585538001638 D-loop; other site 585538001639 H-loop/switch region; other site 585538001640 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 585538001641 dimer interface [polypeptide binding]; other site 585538001642 conserved gate region; other site 585538001643 ABC-ATPase subunit interface; other site 585538001644 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 585538001645 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 585538001646 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 585538001647 ligand binding site [chemical binding]; other site 585538001648 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 585538001649 flagellar motor protein MotA; Validated; Region: PRK08456 585538001650 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 585538001651 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 585538001652 ATP binding site [chemical binding]; other site 585538001653 substrate interface [chemical binding]; other site 585538001654 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 585538001655 Uncharacterized conserved protein [Function unknown]; Region: COG1565 585538001656 RNA methyltransferase, RsmD family; Region: TIGR00095 585538001657 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 585538001658 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 585538001659 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 585538001660 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 585538001661 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 585538001662 N-terminal plug; other site 585538001663 ligand-binding site [chemical binding]; other site 585538001664 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 585538001665 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 585538001666 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 585538001667 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 585538001668 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: ribB; TIGR00506 585538001669 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 585538001670 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 585538001671 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 585538001672 dimerization interface [polypeptide binding]; other site 585538001673 active site 585538001674 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 585538001675 MoaE interaction surface [polypeptide binding]; other site 585538001676 MoeB interaction surface [polypeptide binding]; other site 585538001677 thiocarboxylated glycine; other site 585538001678 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 585538001679 MoaE homodimer interface [polypeptide binding]; other site 585538001680 MoaD interaction [polypeptide binding]; other site 585538001681 active site residues [active] 585538001682 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 585538001683 MPT binding site; other site 585538001684 trimer interface [polypeptide binding]; other site 585538001685 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 585538001686 trimer interface [polypeptide binding]; other site 585538001687 dimer interface [polypeptide binding]; other site 585538001688 putative active site [active] 585538001689 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 585538001690 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538001691 trigger factor; Provisional; Region: tig; PRK01490 585538001692 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 585538001693 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 585538001694 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 585538001695 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 585538001696 oligomer interface [polypeptide binding]; other site 585538001697 active site residues [active] 585538001698 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 585538001699 active site 585538001700 catalytic residues [active] 585538001701 metal binding site [ion binding]; metal-binding site 585538001702 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 585538001703 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 585538001704 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 585538001705 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 585538001706 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 585538001707 metal-binding site [ion binding] 585538001708 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 585538001709 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 585538001710 Soluble P-type ATPase [General function prediction only]; Region: COG4087 585538001711 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 585538001712 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 585538001713 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 585538001714 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 585538001715 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 585538001716 FtsX-like permease family; Region: FtsX; pfam02687 585538001717 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 585538001718 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 585538001719 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 585538001720 nucleotide binding region [chemical binding]; other site 585538001721 ATP-binding site [chemical binding]; other site 585538001722 SEC-C motif; Region: SEC-C; pfam02810 585538001723 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 585538001724 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 585538001725 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 585538001726 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 585538001727 aconitate hydratase 2; Region: acnB; TIGR00117 585538001728 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 585538001729 substrate binding site [chemical binding]; other site 585538001730 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 585538001731 substrate binding site [chemical binding]; other site 585538001732 ligand binding site [chemical binding]; other site 585538001733 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 585538001734 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 585538001735 putative nucleotide binding site [chemical binding]; other site 585538001736 uridine monophosphate binding site [chemical binding]; other site 585538001737 homohexameric interface [polypeptide binding]; other site 585538001738 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 585538001739 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 585538001740 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 585538001741 Zn2+ binding site [ion binding]; other site 585538001742 Mg2+ binding site [ion binding]; other site 585538001743 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 585538001744 synthetase active site [active] 585538001745 NTP binding site [chemical binding]; other site 585538001746 metal binding site [ion binding]; metal-binding site 585538001747 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 585538001748 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 585538001749 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 585538001750 active site 585538001751 HIGH motif; other site 585538001752 dimer interface [polypeptide binding]; other site 585538001753 KMSKS motif; other site 585538001754 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 585538001755 RNA binding surface [nucleotide binding]; other site 585538001756 Nitronate monooxygenase; Region: NMO; pfam03060 585538001757 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 585538001758 FMN binding site [chemical binding]; other site 585538001759 substrate binding site [chemical binding]; other site 585538001760 putative catalytic residue [active] 585538001761 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 585538001762 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 585538001763 active site 585538001764 metal binding site [ion binding]; metal-binding site 585538001765 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 585538001766 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 585538001767 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 585538001768 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 585538001769 GTP binding site; other site 585538001770 potential frameshift: common BLAST hit: gi|308182926|ref|YP_003927053.1| molybdenum cofactor biosynthesis protein A 585538001771 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 585538001772 Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]; Region: MoaA; COG2896 585538001773 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 585538001774 Mu-like prophage protein [General function prediction only]; Region: COG3941 585538001775 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 585538001776 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 585538001777 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 585538001778 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 585538001779 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 585538001780 phosphodiesterase; Provisional; Region: PRK12704 585538001781 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 585538001782 nucleic acid binding region [nucleotide binding]; other site 585538001783 G-X-X-G motif; other site 585538001784 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 585538001785 Zn2+ binding site [ion binding]; other site 585538001786 Mg2+ binding site [ion binding]; other site 585538001787 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 585538001788 putative efflux protein, MATE family; Region: matE; TIGR00797 585538001789 Predicted permease [General function prediction only]; Region: COG2056 585538001790 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 585538001791 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 585538001792 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 585538001793 putative active site; other site 585538001794 catalytic triad [active] 585538001795 putative dimer interface [polypeptide binding]; other site 585538001796 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 585538001797 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 585538001798 putative ATP binding site [chemical binding]; other site 585538001799 putative substrate interface [chemical binding]; other site 585538001800 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 585538001801 flagellar capping protein; Validated; Region: fliD; PRK08453 585538001802 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 585538001803 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 585538001804 flagellar protein FlaG; Provisional; Region: PRK08452 585538001805 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 585538001806 Peptidase family M23; Region: Peptidase_M23; pfam01551 585538001807 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 585538001808 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 585538001809 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 585538001810 Walker A/P-loop; other site 585538001811 ATP binding site [chemical binding]; other site 585538001812 Q-loop/lid; other site 585538001813 ABC transporter signature motif; other site 585538001814 Walker B; other site 585538001815 D-loop; other site 585538001816 H-loop/switch region; other site 585538001817 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 585538001818 S-adenosylmethionine binding site [chemical binding]; other site 585538001819 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 585538001820 Interdomain contacts; other site 585538001821 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 585538001822 Cytokine receptor motif; other site 585538001823 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 585538001824 Interdomain contacts; other site 585538001825 Cytokine receptor motif; other site 585538001826 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 585538001827 Interdomain contacts; other site 585538001828 Cytokine receptor motif; other site 585538001829 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 585538001830 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 585538001831 active site 585538001832 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 585538001833 G2 box; other site 585538001834 Switch I region; other site 585538001835 G3 box; other site 585538001836 Switch II region; other site 585538001837 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 585538001838 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 585538001839 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 585538001840 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585538001841 active site 585538001842 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 585538001843 nucleotide binding site/active site [active] 585538001844 HIT family signature motif; other site 585538001845 catalytic residue [active] 585538001846 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 585538001847 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 585538001848 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 585538001849 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 585538001850 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 585538001851 ATP-grasp domain; Region: ATP-grasp_4; cl17255 585538001852 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 585538001853 tetramer interfaces [polypeptide binding]; other site 585538001854 binuclear metal-binding site [ion binding]; other site 585538001855 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 585538001856 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585538001857 catalytic residue [active] 585538001858 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 585538001859 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585538001860 active site 585538001861 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 585538001862 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 585538001863 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 585538001864 FeS/SAM binding site; other site 585538001865 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 585538001866 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 585538001867 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 585538001868 Ligand Binding Site [chemical binding]; other site 585538001869 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 585538001870 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 585538001871 FMN binding site [chemical binding]; other site 585538001872 active site 585538001873 catalytic residues [active] 585538001874 substrate binding site [chemical binding]; other site 585538001875 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538001876 anaerobic c4-dicarboxylate membrane transporter family protein; Region: Dcu; TIGR00770 585538001877 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 585538001878 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 585538001879 active site 585538001880 homotetramer interface [polypeptide binding]; other site 585538001881 homodimer interface [polypeptide binding]; other site 585538001882 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 585538001883 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 585538001884 Lysine efflux permease [General function prediction only]; Region: COG1279 585538001885 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 585538001886 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 585538001887 Walker A motif; other site 585538001888 ATP binding site [chemical binding]; other site 585538001889 Walker B motif; other site 585538001890 arginine finger; other site 585538001891 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 585538001892 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 585538001893 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 585538001894 Walker A/P-loop; other site 585538001895 ATP binding site [chemical binding]; other site 585538001896 Q-loop/lid; other site 585538001897 ABC transporter signature motif; other site 585538001898 Walker B; other site 585538001899 D-loop; other site 585538001900 H-loop/switch region; other site 585538001901 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 585538001902 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 585538001903 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 585538001904 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 585538001905 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538001906 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 585538001907 Ligand Binding Site [chemical binding]; other site 585538001908 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 585538001909 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 585538001910 active site 585538001911 NTP binding site [chemical binding]; other site 585538001912 metal binding triad [ion binding]; metal-binding site 585538001913 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 585538001914 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 585538001915 dimer interface [polypeptide binding]; other site 585538001916 FMN binding site [chemical binding]; other site 585538001917 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 585538001918 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 585538001919 active site 585538001920 HIGH motif; other site 585538001921 nucleotide binding site [chemical binding]; other site 585538001922 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 585538001923 active site 585538001924 KMSKS motif; other site 585538001925 YGGT family; Region: YGGT; pfam02325 585538001926 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 585538001927 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 585538001928 N-acetyl-D-glucosamine binding site [chemical binding]; other site 585538001929 catalytic residue [active] 585538001930 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 585538001931 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 585538001932 active site 585538001933 tetramer interface; other site 585538001934 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 585538001935 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 585538001936 hinge; other site 585538001937 active site 585538001938 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 585538001939 Aspartase; Region: Aspartase; cd01357 585538001940 active sites [active] 585538001941 tetramer interface [polypeptide binding]; other site 585538001942 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 585538001943 ligand binding site [chemical binding]; other site 585538001944 active site 585538001945 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 585538001946 phosphoserine phosphatase SerB; Region: serB; TIGR00338 585538001947 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 585538001948 motif II; other site 585538001949 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 585538001950 Ferritin-like domain; Region: Ferritin; pfam00210 585538001951 ferroxidase diiron center [ion binding]; other site 585538001952 hypothetical protein; Provisional; Region: PRK08444 585538001953 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 585538001954 FeS/SAM binding site; other site 585538001955 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 585538001956 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 585538001957 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 585538001958 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 585538001959 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 585538001960 Surface antigen; Region: Bac_surface_Ag; pfam01103 585538001961 hypothetical protein; Provisional; Region: PRK08445 585538001962 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 585538001963 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 585538001964 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 585538001965 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 585538001966 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 585538001967 GatB domain; Region: GatB_Yqey; smart00845 585538001968 SurA N-terminal domain; Region: SurA_N; pfam09312 585538001969 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 585538001970 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 585538001971 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 585538001972 RNA/DNA hybrid binding site [nucleotide binding]; other site 585538001973 active site 585538001974 ribonuclease III; Reviewed; Region: rnc; PRK00102 585538001975 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 585538001976 dimerization interface [polypeptide binding]; other site 585538001977 active site 585538001978 metal binding site [ion binding]; metal-binding site 585538001979 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 585538001980 dsRNA binding site [nucleotide binding]; other site 585538001981 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 585538001982 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 585538001983 Tetramer interface [polypeptide binding]; other site 585538001984 active site 585538001985 FMN-binding site [chemical binding]; other site 585538001986 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 585538001987 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 585538001988 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 585538001989 FeS/SAM binding site; other site 585538001990 HemN C-terminal domain; Region: HemN_C; pfam06969 585538001991 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 585538001992 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 585538001993 Cysteine-rich domain; Region: CCG; pfam02754 585538001994 Cysteine-rich domain; Region: CCG; pfam02754 585538001995 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 585538001996 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 585538001997 Predicted helicase [General function prediction only]; Region: COG4889 585538001998 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 585538001999 putative Mg++ binding site [ion binding]; other site 585538002000 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 585538002001 nucleotide binding region [chemical binding]; other site 585538002002 ATP-binding site [chemical binding]; other site 585538002003 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538002004 aspartate aminotransferase; Provisional; Region: PRK05764 585538002005 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 585538002006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585538002007 homodimer interface [polypeptide binding]; other site 585538002008 catalytic residue [active] 585538002009 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 585538002010 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 585538002011 active site 585538002012 DNA binding site [nucleotide binding] 585538002013 Int/Topo IB signature motif; other site 585538002014 potential frameshift: common BLAST hit: gi|308182835|ref|YP_003926962.1| methylated-DNA--protein-cysteine methyltransferase 585538002015 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 585538002016 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 585538002017 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 585538002018 DNA binding site [nucleotide binding] 585538002019 active site 585538002020 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 585538002021 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 585538002022 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 585538002023 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 585538002024 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 585538002025 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 585538002026 ATP cone domain; Region: ATP-cone; pfam03477 585538002027 Class I ribonucleotide reductase; Region: RNR_I; cd01679 585538002028 active site 585538002029 dimer interface [polypeptide binding]; other site 585538002030 catalytic residues [active] 585538002031 effector binding site; other site 585538002032 R2 peptide binding site; other site 585538002033 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 585538002034 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 585538002035 Substrate binding site; other site 585538002036 Mg++ binding site; other site 585538002037 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 585538002038 active site 585538002039 substrate binding site [chemical binding]; other site 585538002040 CoA binding site [chemical binding]; other site 585538002041 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 585538002042 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 585538002043 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 585538002044 N-terminal plug; other site 585538002045 ligand-binding site [chemical binding]; other site 585538002046 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 585538002047 ferrous iron transporter FeoB; Region: feoB; TIGR00437 585538002048 G1 box; other site 585538002049 GTP/Mg2+ binding site [chemical binding]; other site 585538002050 Switch I region; other site 585538002051 G2 box; other site 585538002052 G3 box; other site 585538002053 Switch II region; other site 585538002054 G4 box; other site 585538002055 G5 box; other site 585538002056 Nucleoside recognition; Region: Gate; pfam07670 585538002057 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 585538002058 Nucleoside recognition; Region: Gate; pfam07670 585538002059 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 585538002060 active site 585538002061 catalytic site [active] 585538002062 substrate binding site [chemical binding]; other site 585538002063 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 585538002064 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 585538002065 cofactor binding site; other site 585538002066 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 585538002067 DNA binding site [nucleotide binding] 585538002068 substrate interaction site [chemical binding]; other site 585538002069 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 585538002070 NgoBV restriction endonuclease; Region: RE_NgoBV; pfam09564 585538002071 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB [DNA replication, recombination, and repair]; Region: COG3298 585538002072 putative acyltransferase; Provisional; Region: PRK05790 585538002073 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 585538002074 dimer interface [polypeptide binding]; other site 585538002075 active site 585538002076 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 585538002077 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 585538002078 potential frameshift: common BLAST hit: gi|210134898|ref|YP_002301337.1| short-chain fatty acids transporter 585538002079 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 585538002080 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 585538002081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 585538002082 potential frameshift: common BLAST hit: gi|108563105|ref|YP_627421.1| hydantoin utilization protein A 585538002083 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 585538002084 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 585538002085 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 585538002086 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 585538002087 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 585538002088 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 585538002089 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 585538002090 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 585538002091 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 585538002092 DNA gyrase subunit A; Validated; Region: PRK05560 585538002093 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 585538002094 CAP-like domain; other site 585538002095 active site 585538002096 primary dimer interface [polypeptide binding]; other site 585538002097 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585538002098 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585538002099 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585538002100 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585538002101 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585538002102 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585538002103 Response regulator receiver domain; Region: Response_reg; pfam00072 585538002104 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 585538002105 active site 585538002106 phosphorylation site [posttranslational modification] 585538002107 intermolecular recognition site; other site 585538002108 dimerization interface [polypeptide binding]; other site 585538002109 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 585538002110 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 585538002111 Walker A motif; other site 585538002112 ATP binding site [chemical binding]; other site 585538002113 Walker B motif; other site 585538002114 arginine finger; other site 585538002115 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 585538002116 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 585538002117 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 585538002118 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 585538002119 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538002120 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 585538002121 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 585538002122 Uncharacterized conserved protein [Function unknown]; Region: COG1912 585538002123 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538002124 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 585538002125 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 585538002126 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538002127 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 585538002128 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 585538002129 nickel binding site [ion binding]; other site 585538002130 putative substrate-binding site; other site 585538002131 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 585538002132 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 585538002133 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 585538002134 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 585538002135 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 585538002136 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 585538002137 Uncharacterized conserved protein [Function unknown]; Region: COG1479 585538002138 Protein of unknown function DUF262; Region: DUF262; pfam03235 585538002139 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 585538002140 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 585538002141 Sel1-like repeats; Region: SEL1; smart00671 585538002142 Sel1-like repeats; Region: SEL1; smart00671 585538002143 Sel1 repeat; Region: Sel1; cl02723 585538002144 Sel1-like repeats; Region: SEL1; smart00671 585538002145 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 585538002146 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 585538002147 putative trimer interface [polypeptide binding]; other site 585538002148 putative CoA binding site [chemical binding]; other site 585538002149 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 585538002150 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 585538002151 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 585538002152 hypothetical protein; Provisional; Region: PRK05839 585538002153 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 585538002154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585538002155 homodimer interface [polypeptide binding]; other site 585538002156 catalytic residue [active] 585538002157 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 585538002158 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 585538002159 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 585538002160 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 585538002161 MutS2 family protein; Region: mutS2; TIGR01069 585538002162 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 585538002163 Walker A/P-loop; other site 585538002164 ATP binding site [chemical binding]; other site 585538002165 Q-loop/lid; other site 585538002166 ABC transporter signature motif; other site 585538002167 Walker B; other site 585538002168 D-loop; other site 585538002169 H-loop/switch region; other site 585538002170 Smr domain; Region: Smr; pfam01713 585538002171 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 585538002172 dimer interface [polypeptide binding]; other site 585538002173 substrate binding site [chemical binding]; other site 585538002174 metal binding sites [ion binding]; metal-binding site 585538002175 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 585538002176 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 585538002177 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 585538002178 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 585538002179 adenylate kinase; Reviewed; Region: adk; PRK00279 585538002180 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 585538002181 AMP-binding site [chemical binding]; other site 585538002182 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 585538002183 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 585538002184 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 585538002185 dimer interface [polypeptide binding]; other site 585538002186 anticodon binding site; other site 585538002187 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 585538002188 homodimer interface [polypeptide binding]; other site 585538002189 motif 1; other site 585538002190 active site 585538002191 motif 2; other site 585538002192 GAD domain; Region: GAD; pfam02938 585538002193 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 585538002194 active site 585538002195 motif 3; other site 585538002196 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 585538002197 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 585538002198 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 585538002199 active site 585538002200 phosphorylation site [posttranslational modification] 585538002201 intermolecular recognition site; other site 585538002202 dimerization interface [polypeptide binding]; other site 585538002203 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 585538002204 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 585538002205 nucleotide binding pocket [chemical binding]; other site 585538002206 K-X-D-G motif; other site 585538002207 catalytic site [active] 585538002208 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 585538002209 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 585538002210 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 585538002211 Dimer interface [polypeptide binding]; other site 585538002212 BRCT sequence motif; other site 585538002213 potential frameshift: common BLAST hit: gi|15645238|ref|NP_207408.1| ABC transporter ATP-binding protein 585538002214 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538002215 Q-loop/lid; other site 585538002216 ABC transporter signature motif; other site 585538002217 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538002218 D-loop; other site 585538002219 H-loop/switch region; other site 585538002220 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 585538002221 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 585538002222 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 585538002223 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 585538002224 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 585538002225 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 585538002226 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 585538002227 Autotransporter beta-domain; Region: Autotransporter; pfam03797 585538002228 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538002229 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 585538002230 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585538002231 HlyD family secretion protein; Region: HlyD_3; pfam13437 585538002232 Outer membrane efflux protein; Region: OEP; pfam02321 585538002233 Outer membrane efflux protein; Region: OEP; pfam02321 585538002234 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 585538002235 substrate binding site [chemical binding]; other site 585538002236 active site 585538002237 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 585538002238 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 585538002239 minor groove reading motif; other site 585538002240 helix-hairpin-helix signature motif; other site 585538002241 active site 585538002242 flagellin A; Reviewed; Region: PRK12584 585538002243 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 585538002244 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 585538002245 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 585538002246 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 585538002247 potential frameshift: common BLAST hit: gi|15645225|ref|NP_207395.1| multidrug resistance protein (spaB) 585538002248 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 585538002249 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 585538002250 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 585538002251 Walker A/P-loop; other site 585538002252 ATP binding site [chemical binding]; other site 585538002253 Q-loop/lid; other site 585538002254 ABC transporter signature motif; other site 585538002255 Walker B; other site 585538002256 D-loop; other site 585538002257 H-loop/switch region; other site 585538002258 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 585538002259 dimer interface [polypeptide binding]; other site 585538002260 putative CheW interface [polypeptide binding]; other site 585538002261 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 585538002262 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 585538002263 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585538002264 catalytic residue [active] 585538002265 Transglycosylase; Region: Transgly; pfam00912 585538002266 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 585538002267 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 585538002268 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 585538002269 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 585538002270 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 585538002271 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 585538002272 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 585538002273 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 585538002274 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 585538002275 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 585538002276 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 585538002277 TPP-binding site [chemical binding]; other site 585538002278 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 585538002279 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 585538002280 dimer interface [polypeptide binding]; other site 585538002281 PYR/PP interface [polypeptide binding]; other site 585538002282 TPP binding site [chemical binding]; other site 585538002283 substrate binding site [chemical binding]; other site 585538002284 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 585538002285 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 585538002286 YceG-like family; Region: YceG; pfam02618 585538002287 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 585538002288 dimerization interface [polypeptide binding]; other site 585538002289 Protein of unknown function; Region: DUF3971; pfam13116 585538002290 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 585538002291 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 585538002292 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 585538002293 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 585538002294 minor groove reading motif; other site 585538002295 helix-hairpin-helix signature motif; other site 585538002296 substrate binding pocket [chemical binding]; other site 585538002297 active site 585538002298 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 585538002299 flagellar motor switch protein; Validated; Region: PRK08433 585538002300 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 585538002301 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 585538002302 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 585538002303 active site 585538002304 substrate binding pocket [chemical binding]; other site 585538002305 dimer interface [polypeptide binding]; other site 585538002306 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 585538002307 BNR repeat-like domain; Region: BNR_2; pfam13088 585538002308 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 585538002309 Sulfatase; Region: Sulfatase; pfam00884 585538002310 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 585538002311 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 585538002312 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 585538002313 homodimer interface [polypeptide binding]; other site 585538002314 NADP binding site [chemical binding]; other site 585538002315 substrate binding site [chemical binding]; other site 585538002316 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 585538002317 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 585538002318 Catalytic site [active] 585538002319 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 585538002320 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 585538002321 Peptidase family M50; Region: Peptidase_M50; pfam02163 585538002322 active site 585538002323 putative substrate binding region [chemical binding]; other site 585538002324 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 585538002325 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 585538002326 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585538002327 active site 585538002328 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 585538002329 multifunctional aminopeptidase A; Provisional; Region: PRK00913 585538002330 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 585538002331 interface (dimer of trimers) [polypeptide binding]; other site 585538002332 Substrate-binding/catalytic site; other site 585538002333 Zn-binding sites [ion binding]; other site 585538002334 GTP-binding protein YchF; Reviewed; Region: PRK09601 585538002335 YchF GTPase; Region: YchF; cd01900 585538002336 G1 box; other site 585538002337 GTP/Mg2+ binding site [chemical binding]; other site 585538002338 Switch I region; other site 585538002339 G2 box; other site 585538002340 Switch II region; other site 585538002341 G3 box; other site 585538002342 G4 box; other site 585538002343 G5 box; other site 585538002344 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 585538002345 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 585538002346 FeS/SAM binding site; other site 585538002347 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 585538002348 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 585538002349 Domain of unknown function DUF20; Region: UPF0118; pfam01594 585538002350 diaminopimelate epimerase; Region: DapF; TIGR00652 585538002351 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 585538002352 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 585538002353 Predicted membrane protein [Function unknown]; Region: COG3059 585538002354 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 585538002355 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 585538002356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 585538002357 NAD(P) binding site [chemical binding]; other site 585538002358 active site 585538002359 acyl carrier protein; Provisional; Region: acpP; PRK00982 585538002360 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 585538002361 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 585538002362 dimer interface [polypeptide binding]; other site 585538002363 active site 585538002364 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 585538002365 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 585538002366 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 585538002367 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 585538002368 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 585538002369 Predicted methyltransferases [General function prediction only]; Region: COG0313 585538002370 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 585538002371 putative SAM binding site [chemical binding]; other site 585538002372 putative homodimer interface [polypeptide binding]; other site 585538002373 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 585538002374 transcription termination factor Rho; Provisional; Region: rho; PRK09376 585538002375 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 585538002376 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 585538002377 RNA binding site [nucleotide binding]; other site 585538002378 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 585538002379 multimer interface [polypeptide binding]; other site 585538002380 Walker A motif; other site 585538002381 ATP binding site [chemical binding]; other site 585538002382 Walker B motif; other site 585538002383 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 585538002384 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 585538002385 CagA exotoxin; Region: CagA; pfam03507 585538002386 CagA exotoxin; Region: CagA; pfam03507 585538002387 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 585538002388 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 585538002389 prolyl-tRNA synthetase; Provisional; Region: PRK08661 585538002390 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 585538002391 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 585538002392 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 585538002393 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 585538002394 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 585538002395 VirB7 interaction site; other site 585538002396 DC-EC Repeat; Region: CagY_M; pfam07337 585538002397 DC-EC Repeat; Region: CagY_M; pfam07337 585538002398 DC-EC Repeat; Region: CagY_M; pfam07337 585538002399 DC-EC Repeat; Region: CagY_M; pfam07337 585538002400 DC-EC Repeat; Region: CagY_M; pfam07337 585538002401 DC-EC Repeat; Region: CagY_M; pfam07337 585538002402 DC-EC Repeat; Region: CagY_M; pfam07337 585538002403 DC-EC Repeat; Region: CagY_M; pfam07337 585538002404 DC-EC Repeat; Region: CagY_M; pfam07337 585538002405 DC-EC Repeat; Region: CagY_M; pfam07337 585538002406 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 585538002407 CagZ; Region: CagZ; pfam09053 585538002408 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 585538002409 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 585538002410 ATP binding site [chemical binding]; other site 585538002411 Walker A motif; other site 585538002412 hexamer interface [polypeptide binding]; other site 585538002413 Walker B motif; other site 585538002414 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 585538002415 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 585538002416 Walker A motif; other site 585538002417 ATP binding site [chemical binding]; other site 585538002418 Walker B motif; other site 585538002419 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 585538002420 Sel1-like repeats; Region: SEL1; smart00671 585538002421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 585538002422 GTPase [General function prediction only]; Region: Era; COG1159 585538002423 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 585538002424 G1 box; other site 585538002425 GTP/Mg2+ binding site [chemical binding]; other site 585538002426 Switch I region; other site 585538002427 G2 box; other site 585538002428 Switch II region; other site 585538002429 G3 box; other site 585538002430 G4 box; other site 585538002431 G5 box; other site 585538002432 KH domain; Region: KH_2; pfam07650 585538002433 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 585538002434 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 585538002435 Walker A motif; other site 585538002436 ATP binding site [chemical binding]; other site 585538002437 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 585538002438 Walker B motif; other site 585538002439 arginine finger; other site 585538002440 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 585538002441 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 585538002442 active site 585538002443 HslU subunit interaction site [polypeptide binding]; other site 585538002444 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 585538002445 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 585538002446 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 585538002447 Uncharacterized conserved protein [Function unknown]; Region: COG1479 585538002448 Protein of unknown function DUF262; Region: DUF262; pfam03235 585538002449 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 585538002450 Uncharacterized conserved protein [Function unknown]; Region: COG3586 585538002451 glutamine synthetase, type I; Region: GlnA; TIGR00653 585538002452 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 585538002453 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 585538002454 dihydrodipicolinate reductase; Region: dapB; TIGR00036 585538002455 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 585538002456 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 585538002457 FAD binding domain; Region: FAD_binding_4; pfam01565 585538002458 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 585538002459 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 585538002460 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 585538002461 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 585538002462 dimer interface [polypeptide binding]; other site 585538002463 ADP-ribose binding site [chemical binding]; other site 585538002464 active site 585538002465 nudix motif; other site 585538002466 metal binding site [ion binding]; metal-binding site 585538002467 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 585538002468 Peptidase family M23; Region: Peptidase_M23; pfam01551 585538002469 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 585538002470 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 585538002471 Mg2+ binding site [ion binding]; other site 585538002472 G-X-G motif; other site 585538002473 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 585538002474 anchoring element; other site 585538002475 dimer interface [polypeptide binding]; other site 585538002476 ATP binding site [chemical binding]; other site 585538002477 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 585538002478 active site 585538002479 putative metal-binding site [ion binding]; other site 585538002480 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 585538002481 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 585538002482 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 585538002483 putative DNA binding surface [nucleotide binding]; other site 585538002484 dimer interface [polypeptide binding]; other site 585538002485 beta-clamp/translesion DNA polymerase binding surface; other site 585538002486 beta-clamp/clamp loader binding surface; other site 585538002487 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 585538002488 dimerization interface [polypeptide binding]; other site 585538002489 substrate binding site [chemical binding]; other site 585538002490 active site 585538002491 calcium binding site [ion binding]; other site 585538002492 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 585538002493 Na2 binding site [ion binding]; other site 585538002494 putative substrate binding site 1 [chemical binding]; other site 585538002495 Na binding site 1 [ion binding]; other site 585538002496 putative substrate binding site 2 [chemical binding]; other site 585538002497 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 585538002498 Na2 binding site [ion binding]; other site 585538002499 putative substrate binding site 1 [chemical binding]; other site 585538002500 Na binding site 1 [ion binding]; other site 585538002501 putative substrate binding site 2 [chemical binding]; other site 585538002502 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 585538002503 active site 585538002504 Protein of unknown function (DUF493); Region: DUF493; pfam04359 585538002505 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 585538002506 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 585538002507 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 585538002508 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 585538002509 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 585538002510 Mg++ binding site [ion binding]; other site 585538002511 putative catalytic motif [active] 585538002512 putative substrate binding site [chemical binding]; other site 585538002513 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 585538002514 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 585538002515 Cation transport protein; Region: TrkH; cl17365 585538002516 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 585538002517 TrkA-N domain; Region: TrkA_N; pfam02254 585538002518 TrkA-C domain; Region: TrkA_C; pfam02080 585538002519 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 585538002520 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 585538002521 RuvA N terminal domain; Region: RuvA_N; pfam01330 585538002522 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 585538002523 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 585538002524 MviN-like protein; Region: MVIN; pfam03023 585538002525 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 585538002526 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 585538002527 active site 585538002528 HIGH motif; other site 585538002529 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 585538002530 KMSKS motif; other site 585538002531 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 585538002532 tRNA binding surface [nucleotide binding]; other site 585538002533 anticodon binding site; other site 585538002534 Vacuolating cyotoxin; Region: VacA; pfam02691 585538002535 Autotransporter beta-domain; Region: Autotransporter; pfam03797 585538002536 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 585538002537 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 585538002538 Walker A/P-loop; other site 585538002539 ATP binding site [chemical binding]; other site 585538002540 Q-loop/lid; other site 585538002541 ABC transporter signature motif; other site 585538002542 Walker B; other site 585538002543 D-loop; other site 585538002544 H-loop/switch region; other site 585538002545 potential frameshift: common BLAST hit: gi|308184671|ref|YP_003928804.1| ABC-type transport system, permease; Iron(III) dicitrate transport 585538002546 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 585538002547 putative PBP binding regions; other site 585538002548 ABC-ATPase subunit interface; other site 585538002549 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 585538002550 short chain dehydrogenase; Validated; Region: PRK06182 585538002551 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 585538002552 NADP binding site [chemical binding]; other site 585538002553 active site 585538002554 steroid binding site; other site 585538002555 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 585538002556 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 585538002557 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 585538002558 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 585538002559 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 585538002560 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 585538002561 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 585538002562 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 585538002563 Acetokinase family; Region: Acetate_kinase; cl17229 585538002564 Acetokinase family; Region: Acetate_kinase; cl17229 585538002565 Acetokinase family; Region: Acetate_kinase; cl17229 585538002566 potential frameshift: common BLAST hit: gi|254779508|ref|YP_003057614.1| phosphotransacetylase 585538002567 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 585538002568 potential frameshift: common BLAST hit: gi|254779508|ref|YP_003057614.1| phosphotransacetylase 585538002569 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 585538002570 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 585538002571 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 585538002572 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 585538002573 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 585538002574 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 585538002575 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 585538002576 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 585538002577 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 585538002578 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 585538002579 S-adenosylmethionine binding site [chemical binding]; other site 585538002580 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 585538002581 Part of AAA domain; Region: AAA_19; pfam13245 585538002582 Family description; Region: UvrD_C_2; pfam13538 585538002583 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538002584 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538002585 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 585538002586 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 585538002587 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 585538002588 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 585538002589 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 585538002590 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 585538002591 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 585538002592 ATP-grasp domain; Region: ATP-grasp_4; cl17255 585538002593 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 585538002594 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 585538002595 ATP-grasp domain; Region: ATP-grasp_4; cl17255 585538002596 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 585538002597 IMP binding site; other site 585538002598 dimer interface [polypeptide binding]; other site 585538002599 interdomain contacts; other site 585538002600 partial ornithine binding site; other site 585538002601 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 585538002602 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 585538002603 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 585538002604 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 585538002605 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 585538002606 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 585538002607 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 585538002608 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 585538002609 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 585538002610 Autotransporter beta-domain; Region: Autotransporter; pfam03797 585538002611 potential frameshift: common BLAST hit: gi|188527746|ref|YP_001910433.1| outer membrane protein 585538002612 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538002613 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538002614 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 585538002615 active site 1 [active] 585538002616 dimer interface [polypeptide binding]; other site 585538002617 hexamer interface [polypeptide binding]; other site 585538002618 active site 2 [active] 585538002619 recombination protein RecR; Region: recR; TIGR00615 585538002620 RecR protein; Region: RecR; pfam02132 585538002621 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 585538002622 putative active site [active] 585538002623 putative metal-binding site [ion binding]; other site 585538002624 tetramer interface [polypeptide binding]; other site 585538002625 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 585538002626 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 585538002627 Permutation of conserved domain; other site 585538002628 active site 585538002629 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 585538002630 heat shock protein HtpX; Provisional; Region: PRK02870 585538002631 GTP cyclohydrolase I; Region: folE; TIGR00063 585538002632 GTP cyclohydrolase I; Provisional; Region: PLN03044 585538002633 active site 585538002634 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 585538002635 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 585538002636 substrate binding pocket [chemical binding]; other site 585538002637 chain length determination region; other site 585538002638 substrate-Mg2+ binding site; other site 585538002639 catalytic residues [active] 585538002640 aspartate-rich region 1; other site 585538002641 active site lid residues [active] 585538002642 aspartate-rich region 2; other site 585538002643 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 585538002644 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 585538002645 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 585538002646 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 585538002647 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 585538002648 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585538002649 Coenzyme A binding pocket [chemical binding]; other site 585538002650 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538002651 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 585538002652 putative substrate translocation pore; other site 585538002653 Protein of unknown function DUF262; Region: DUF262; pfam03235 585538002654 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 585538002655 Uncharacterized conserved protein [Function unknown]; Region: COG1479 585538002656 Protein of unknown function DUF262; Region: DUF262; pfam03235 585538002657 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 585538002658 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 585538002659 dimer interface [polypeptide binding]; other site 585538002660 conserved gate region; other site 585538002661 putative PBP binding loops; other site 585538002662 ABC-ATPase subunit interface; other site 585538002663 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 585538002664 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 585538002665 substrate binding pocket [chemical binding]; other site 585538002666 membrane-bound complex binding site; other site 585538002667 hinge residues; other site 585538002668 alanine racemase; Region: alr; TIGR00492 585538002669 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 585538002670 active site 585538002671 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 585538002672 dimer interface [polypeptide binding]; other site 585538002673 substrate binding site [chemical binding]; other site 585538002674 catalytic residues [active] 585538002675 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 585538002676 amino acid carrier protein; Region: agcS; TIGR00835 585538002677 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 585538002678 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 585538002679 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 585538002680 homotrimer interaction site [polypeptide binding]; other site 585538002681 putative active site [active] 585538002682 TRL-like protein family; Region: TRL; pfam13146 585538002683 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 585538002684 Uncharacterized conserved protein [Function unknown]; Region: COG1576 585538002685 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 585538002686 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 585538002687 putative recombination protein RecO; Provisional; Region: PRK13908 585538002688 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 585538002689 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 585538002690 dimer interface [polypeptide binding]; other site 585538002691 FMN binding site [chemical binding]; other site 585538002692 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 585538002693 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 585538002694 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 585538002695 active site 585538002696 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 585538002697 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 585538002698 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 585538002699 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 585538002700 Putative zinc ribbon domain; Region: DUF164; pfam02591 585538002701 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 585538002702 Uncharacterized conserved protein [Function unknown]; Region: COG0327 585538002703 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 585538002704 dimer interface [polypeptide binding]; other site 585538002705 motif 1; other site 585538002706 active site 585538002707 motif 2; other site 585538002708 motif 3; other site 585538002709 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 585538002710 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 585538002711 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 585538002712 potential frameshift: common BLAST hit: gi|298736078|ref|YP_003728603.1| interferon-induced GTP-binding protein Mx2 585538002713 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 585538002714 Dynamin family; Region: Dynamin_N; pfam00350 585538002715 G1 box; other site 585538002716 GTP/Mg2+ binding site [chemical binding]; other site 585538002717 G2 box; other site 585538002718 Switch I region; other site 585538002719 G3 box; other site 585538002720 Switch II region; other site 585538002721 G4 box; other site 585538002722 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 585538002723 G3 box; other site 585538002724 Switch II region; other site 585538002725 G4 box; other site 585538002726 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 585538002727 G1 box; other site 585538002728 GTP/Mg2+ binding site [chemical binding]; other site 585538002729 G2 box; other site 585538002730 Switch I region; other site 585538002731 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 585538002732 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 585538002733 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 585538002734 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 585538002735 HlyD family secretion protein; Region: HlyD_3; pfam13437 585538002736 Outer membrane efflux protein; Region: OEP; pfam02321 585538002737 Outer membrane efflux protein; Region: OEP; pfam02321 585538002738 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 585538002739 phosphoglyceromutase; Provisional; Region: PRK05434 585538002740 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 585538002741 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 585538002742 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 585538002743 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 585538002744 inhibitor-cofactor binding pocket; inhibition site 585538002745 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585538002746 catalytic residue [active] 585538002747 SurA N-terminal domain; Region: SurA_N_3; cl07813 585538002748 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 585538002749 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 585538002750 cell division protein FtsA; Region: ftsA; TIGR01174 585538002751 Cell division protein FtsA; Region: FtsA; smart00842 585538002752 Cell division protein FtsA; Region: FtsA; pfam14450 585538002753 cell division protein FtsZ; Validated; Region: PRK09330 585538002754 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 585538002755 nucleotide binding site [chemical binding]; other site 585538002756 SulA interaction site; other site 585538002757 Mechanosensitive ion channel; Region: MS_channel; pfam00924 585538002758 Protein of unknown function DUF262; Region: DUF262; pfam03235 585538002759 Uncharacterized conserved protein [Function unknown]; Region: COG1479 585538002760 Protein of unknown function DUF262; Region: DUF262; pfam03235 585538002761 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 585538002762 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 585538002763 DHH family; Region: DHH; pfam01368 585538002764 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 585538002765 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 585538002766 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 585538002767 active site 585538002768 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 585538002769 catalytic residues [active] 585538002770 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 585538002771 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 585538002772 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 585538002773 putative ADP-binding pocket [chemical binding]; other site 585538002774 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 585538002775 active site 2 [active] 585538002776 active site 1 [active] 585538002777 Methyltransferase domain; Region: Methyltransf_23; pfam13489 585538002778 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 585538002779 S-adenosylmethionine binding site [chemical binding]; other site 585538002780 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 585538002781 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 585538002782 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 585538002783 active site 585538002784 HIGH motif; other site 585538002785 KMSKS motif; other site 585538002786 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 585538002787 anticodon binding site; other site 585538002788 tRNA binding surface [nucleotide binding]; other site 585538002789 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 585538002790 dimer interface [polypeptide binding]; other site 585538002791 putative tRNA-binding site [nucleotide binding]; other site 585538002792 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 585538002793 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 585538002794 S-adenosylmethionine binding site [chemical binding]; other site 585538002795 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 585538002796 Mechanosensitive ion channel; Region: MS_channel; pfam00924 585538002797 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 585538002798 GMP synthase; Reviewed; Region: guaA; PRK00074 585538002799 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 585538002800 AMP/PPi binding site [chemical binding]; other site 585538002801 candidate oxyanion hole; other site 585538002802 catalytic triad [active] 585538002803 potential glutamine specificity residues [chemical binding]; other site 585538002804 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 585538002805 ATP Binding subdomain [chemical binding]; other site 585538002806 Ligand Binding sites [chemical binding]; other site 585538002807 Dimerization subdomain; other site 585538002808 potential frameshift: common BLAST hit: gi|188527828|ref|YP_001910515.1| biotin sulfoxide reductase BisC 585538002809 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 585538002810 molybdopterin cofactor binding site; other site 585538002811 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 585538002812 molybdopterin cofactor binding site; other site 585538002813 potential frameshift: common BLAST hit: gi|308183150|ref|YP_003927277.1| biotin sulfoxide reductase (bisC) 585538002814 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 585538002815 potential frameshift: common BLAST hit: gi|308183150|ref|YP_003927277.1| biotin sulfoxide reductase (bisC) 585538002816 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 585538002817 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 585538002818 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 585538002819 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 585538002820 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 585538002821 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585538002822 catalytic residue [active] 585538002823 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 585538002824 nucleotide binding site/active site [active] 585538002825 HIT family signature motif; other site 585538002826 catalytic residue [active] 585538002827 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 585538002828 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 585538002829 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 585538002830 dimer interface [polypeptide binding]; other site 585538002831 motif 1; other site 585538002832 active site 585538002833 motif 2; other site 585538002834 motif 3; other site 585538002835 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 585538002836 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 585538002837 putative tRNA-binding site [nucleotide binding]; other site 585538002838 tRNA synthetase B5 domain; Region: B5; pfam03484 585538002839 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 585538002840 dimer interface [polypeptide binding]; other site 585538002841 motif 1; other site 585538002842 motif 3; other site 585538002843 motif 2; other site 585538002844 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 585538002845 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 585538002846 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 585538002847 hinge; other site 585538002848 active site 585538002849 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 585538002850 LytB protein; Region: LYTB; pfam02401 585538002851 ribosomal protein S1; Region: rpsA; TIGR00717 585538002852 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 585538002853 RNA binding site [nucleotide binding]; other site 585538002854 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 585538002855 RNA binding site [nucleotide binding]; other site 585538002856 S1 RNA binding domain; Region: S1; pfam00575 585538002857 RNA binding site [nucleotide binding]; other site 585538002858 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 585538002859 RNA binding site [nucleotide binding]; other site 585538002860 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 585538002861 RNA binding site [nucleotide binding]; other site 585538002862 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 585538002863 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 585538002864 ligand binding site [chemical binding]; other site 585538002865 NAD binding site [chemical binding]; other site 585538002866 dimerization interface [polypeptide binding]; other site 585538002867 catalytic site [active] 585538002868 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 585538002869 putative L-serine binding site [chemical binding]; other site 585538002870 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 585538002871 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 585538002872 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 585538002873 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 585538002874 catalytic residue [active] 585538002875 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 585538002876 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 585538002877 putative active site [active] 585538002878 putative metal binding site [ion binding]; other site 585538002879 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 585538002880 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 585538002881 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 585538002882 active site 585538002883 phosphorylation site [posttranslational modification] 585538002884 intermolecular recognition site; other site 585538002885 dimerization interface [polypeptide binding]; other site 585538002886 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 585538002887 putative binding surface; other site 585538002888 active site 585538002889 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 585538002890 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 585538002891 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 585538002892 ATP binding site [chemical binding]; other site 585538002893 Mg2+ binding site [ion binding]; other site 585538002894 G-X-G motif; other site 585538002895 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 585538002896 Response regulator receiver domain; Region: Response_reg; pfam00072 585538002897 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 585538002898 active site 585538002899 phosphorylation site [posttranslational modification] 585538002900 intermolecular recognition site; other site 585538002901 dimerization interface [polypeptide binding]; other site 585538002902 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 585538002903 putative CheA interaction surface; other site 585538002904 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 585538002905 dimer interface [polypeptide binding]; other site 585538002906 catalytic triad [active] 585538002907 peroxidatic and resolving cysteines [active] 585538002908 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 585538002909 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 585538002910 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 585538002911 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 585538002912 S-adenosylmethionine binding site [chemical binding]; other site 585538002913 primosome assembly protein PriA; Validated; Region: PRK05580 585538002914 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 585538002915 ATP binding site [chemical binding]; other site 585538002916 putative Mg++ binding site [ion binding]; other site 585538002917 helicase superfamily c-terminal domain; Region: HELICc; smart00490 585538002918 Sporulation related domain; Region: SPOR; pfam05036 585538002919 Peptidase family M48; Region: Peptidase_M48; pfam01435 585538002920 HemK family putative methylases; Region: hemK_fam; TIGR00536 585538002921 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 585538002922 glutamate dehydrogenase; Provisional; Region: PRK09414 585538002923 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 585538002924 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 585538002925 NAD(P) binding site [chemical binding]; other site 585538002926 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 585538002927 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 585538002928 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 585538002929 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 585538002930 catalytic residues [active] 585538002931 ferrochelatase; Region: hemH; TIGR00109 585538002932 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 585538002933 C-terminal domain interface [polypeptide binding]; other site 585538002934 active site 585538002935 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 585538002936 active site 585538002937 N-terminal domain interface [polypeptide binding]; other site 585538002938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 585538002939 RNA methyltransferase, RsmE family; Region: TIGR00046 585538002940 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538002941 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 585538002942 trimer interface [polypeptide binding]; other site 585538002943 active site 585538002944 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 585538002945 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 585538002946 carboxyltransferase (CT) interaction site; other site 585538002947 biotinylation site [posttranslational modification]; other site 585538002948 biotin carboxylase; Validated; Region: PRK08462 585538002949 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 585538002950 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 585538002951 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 585538002952 Methyltransferase domain; Region: Methyltransf_26; pfam13659 585538002953 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 585538002954 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 585538002955 inhibitor-cofactor binding pocket; inhibition site 585538002956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585538002957 catalytic residue [active] 585538002958 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 585538002959 dimer interface [polypeptide binding]; other site 585538002960 putative radical transfer pathway; other site 585538002961 diiron center [ion binding]; other site 585538002962 tyrosyl radical; other site 585538002963 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 585538002964 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 585538002965 S-adenosylmethionine binding site [chemical binding]; other site 585538002966 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 585538002967 Predicted permeases [General function prediction only]; Region: COG0795 585538002968 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 585538002969 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 585538002970 dimerization interface 3.5A [polypeptide binding]; other site 585538002971 active site 585538002972 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 585538002973 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 585538002974 NAD binding site [chemical binding]; other site 585538002975 homodimer interface [polypeptide binding]; other site 585538002976 active site 585538002977 substrate binding site [chemical binding]; other site 585538002978 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 585538002979 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 585538002980 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 585538002981 putative NAD(P) binding site [chemical binding]; other site 585538002982 homodimer interface [polypeptide binding]; other site 585538002983 homotetramer interface [polypeptide binding]; other site 585538002984 active site 585538002985 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 585538002986 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 585538002987 binding surface 585538002988 TPR motif; other site 585538002989 Sel1-like repeats; Region: SEL1; smart00671 585538002990 Sel1-like repeats; Region: SEL1; smart00671 585538002991 Sel1-like repeats; Region: SEL1; smart00671 585538002992 Entner-Doudoroff aldolase; Region: eda; TIGR01182 585538002993 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 585538002994 active site 585538002995 intersubunit interface [polypeptide binding]; other site 585538002996 catalytic residue [active] 585538002997 phosphogluconate dehydratase; Validated; Region: PRK09054 585538002998 6-phosphogluconate dehydratase; Region: edd; TIGR01196 585538002999 Glucose-6-phosphate 1-dehydrogenase [Carbohydrate transport and metabolism]; Region: Zwf; COG0364 585538003000 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 585538003001 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 585538003002 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 585538003003 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 585538003004 putative active site [active] 585538003005 glucokinase, proteobacterial type; Region: glk; TIGR00749 585538003006 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585538003007 nucleotide binding site [chemical binding]; other site 585538003008 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 585538003009 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 585538003010 putative NAD(P) binding site [chemical binding]; other site 585538003011 putative substrate binding site [chemical binding]; other site 585538003012 catalytic Zn binding site [ion binding]; other site 585538003013 structural Zn binding site [ion binding]; other site 585538003014 dimer interface [polypeptide binding]; other site 585538003015 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 585538003016 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 585538003017 active site 585538003018 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538003019 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 585538003020 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 585538003021 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 585538003022 4Fe-4S binding domain; Region: Fer4; pfam00037 585538003023 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 585538003024 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 585538003025 dimer interface [polypeptide binding]; other site 585538003026 PYR/PP interface [polypeptide binding]; other site 585538003027 TPP binding site [chemical binding]; other site 585538003028 substrate binding site [chemical binding]; other site 585538003029 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 585538003030 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 585538003031 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 585538003032 TPP-binding site [chemical binding]; other site 585538003033 putative dimer interface [polypeptide binding]; other site 585538003034 adenylosuccinate lyase; Provisional; Region: PRK08470 585538003035 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 585538003036 tetramer interface [polypeptide binding]; other site 585538003037 active site 585538003038 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 585538003039 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538003040 excinuclease ABC subunit B; Provisional; Region: PRK05298 585538003041 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 585538003042 ATP binding site [chemical binding]; other site 585538003043 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 585538003044 putative Mg++ binding site [ion binding]; other site 585538003045 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 585538003046 nucleotide binding region [chemical binding]; other site 585538003047 ATP-binding site [chemical binding]; other site 585538003048 Ultra-violet resistance protein B; Region: UvrB; pfam12344 585538003049 UvrB/uvrC motif; Region: UVR; pfam02151 585538003050 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 585538003051 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 585538003052 binding surface 585538003053 TPR motif; other site 585538003054 Sel1-like repeats; Region: SEL1; smart00671 585538003055 Sel1-like repeats; Region: SEL1; smart00671 585538003056 Sel1-like repeats; Region: SEL1; smart00671 585538003057 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 585538003058 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 585538003059 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 585538003060 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 585538003061 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 585538003062 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 585538003063 cofactor binding site; other site 585538003064 DNA binding site [nucleotide binding] 585538003065 substrate interaction site [chemical binding]; other site 585538003066 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 585538003067 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 585538003068 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 585538003069 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 585538003070 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 585538003071 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 585538003072 ligand binding site [chemical binding]; other site 585538003073 translocation protein TolB; Provisional; Region: tolB; PRK04043 585538003074 TolB amino-terminal domain; Region: TolB_N; pfam04052 585538003075 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 585538003076 TonB C terminal; Region: TonB_2; pfam13103 585538003077 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 585538003078 TolR protein; Region: tolR; TIGR02801 585538003079 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 585538003080 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 585538003081 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 585538003082 gamma subunit interface [polypeptide binding]; other site 585538003083 epsilon subunit interface [polypeptide binding]; other site 585538003084 LBP interface [polypeptide binding]; other site 585538003085 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 585538003086 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 585538003087 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 585538003088 alpha subunit interaction interface [polypeptide binding]; other site 585538003089 Walker A motif; other site 585538003090 ATP binding site [chemical binding]; other site 585538003091 Walker B motif; other site 585538003092 inhibitor binding site; inhibition site 585538003093 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 585538003094 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 585538003095 core domain interface [polypeptide binding]; other site 585538003096 delta subunit interface [polypeptide binding]; other site 585538003097 epsilon subunit interface [polypeptide binding]; other site 585538003098 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 585538003099 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 585538003100 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 585538003101 beta subunit interaction interface [polypeptide binding]; other site 585538003102 Walker A motif; other site 585538003103 ATP binding site [chemical binding]; other site 585538003104 Walker B motif; other site 585538003105 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 585538003106 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13431 585538003107 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 585538003108 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 585538003109 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 585538003110 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 585538003111 ParB-like nuclease domain; Region: ParB; smart00470 585538003112 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 585538003113 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 585538003114 P-loop; other site 585538003115 Magnesium ion binding site [ion binding]; other site 585538003116 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 585538003117 Magnesium ion binding site [ion binding]; other site 585538003118 biotin--protein ligase; Provisional; Region: PRK08477 585538003119 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 585538003120 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 585538003121 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 585538003122 putative active site [active] 585538003123 substrate binding site [chemical binding]; other site 585538003124 putative cosubstrate binding site; other site 585538003125 catalytic site [active] 585538003126 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 585538003127 substrate binding site [chemical binding]; other site 585538003128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 585538003129 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 585538003130 oligomer interface [polypeptide binding]; other site 585538003131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538003132 Walker B; other site 585538003133 D-loop; other site 585538003134 H-loop/switch region; other site 585538003135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 585538003136 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 585538003137 Uncharacterized conserved protein [Function unknown]; Region: COG1432 585538003138 LabA_like proteins; Region: LabA_like; cd06167 585538003139 putative metal binding site [ion binding]; other site 585538003140 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 585538003141 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 585538003142 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 585538003143 RimM N-terminal domain; Region: RimM; pfam01782 585538003144 PRC-barrel domain; Region: PRC; pfam05239 585538003145 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 585538003146 KH domain; Region: KH_4; pfam13083 585538003147 G-X-X-G motif; other site 585538003148 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 585538003149 signal recognition particle protein; Provisional; Region: PRK10867 585538003150 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 585538003151 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 585538003152 P loop; other site 585538003153 GTP binding site [chemical binding]; other site 585538003154 Signal peptide binding domain; Region: SRP_SPB; pfam02978 585538003155 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 585538003156 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 585538003157 active site 585538003158 HIGH motif; other site 585538003159 nucleotide binding site [chemical binding]; other site 585538003160 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 585538003161 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 585538003162 active site 585538003163 KMSKS motif; other site 585538003164 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 585538003165 anticodon binding site; other site 585538003166 flagellar assembly protein FliW; Provisional; Region: PRK13283 585538003167 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 585538003168 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 585538003169 active site 585538003170 homodimer interface [polypeptide binding]; other site 585538003171 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538003172 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538003173 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 585538003174 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 585538003175 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 585538003176 Fic/DOC family; Region: Fic; cl00960 585538003177 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 585538003178 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 585538003179 Uncharacterized conserved protein [Function unknown]; Region: COG4278 585538003180 metal-binding heat shock protein; Provisional; Region: PRK00016 585538003181 flavodoxin FldA; Validated; Region: PRK09267 585538003182 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 585538003183 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 585538003184 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 585538003185 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 585538003186 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 585538003187 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585538003188 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585538003189 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 585538003190 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 585538003191 active site 585538003192 dimer interface [polypeptide binding]; other site 585538003193 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 585538003194 dimer interface [polypeptide binding]; other site 585538003195 active site 585538003196 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 585538003197 carbon starvation protein A; Provisional; Region: PRK15015 585538003198 Carbon starvation protein CstA; Region: CstA; pfam02554 585538003199 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 585538003200 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 585538003201 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 585538003202 dimer interface [polypeptide binding]; other site 585538003203 conserved gate region; other site 585538003204 putative PBP binding loops; other site 585538003205 ABC-ATPase subunit interface; other site 585538003206 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 585538003207 dimer interface [polypeptide binding]; other site 585538003208 conserved gate region; other site 585538003209 putative PBP binding loops; other site 585538003210 ABC-ATPase subunit interface; other site 585538003211 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 585538003212 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 585538003213 Walker A/P-loop; other site 585538003214 ATP binding site [chemical binding]; other site 585538003215 Q-loop/lid; other site 585538003216 ABC transporter signature motif; other site 585538003217 Walker B; other site 585538003218 D-loop; other site 585538003219 H-loop/switch region; other site 585538003220 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 585538003221 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 585538003222 substrate binding pocket [chemical binding]; other site 585538003223 membrane-bound complex binding site; other site 585538003224 hinge residues; other site 585538003225 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 585538003226 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 585538003227 putative substrate translocation pore; other site 585538003228 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 585538003229 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538003230 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 585538003231 phosphopentomutase; Provisional; Region: PRK05362 585538003232 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 585538003233 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 585538003234 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 585538003235 Nucleoside recognition; Region: Gate; pfam07670 585538003236 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 585538003237 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 585538003238 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585538003239 putative substrate translocation pore; other site 585538003240 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 585538003241 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 585538003242 Ligand Binding Site [chemical binding]; other site 585538003243 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 585538003244 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 585538003245 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 585538003246 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 585538003247 putative arabinose transporter; Provisional; Region: PRK03545 585538003248 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 585538003249 putative substrate translocation pore; other site 585538003250 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 585538003251 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 585538003252 active site 585538003253 zinc binding site [ion binding]; other site 585538003254 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 585538003255 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 585538003256 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 585538003257 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 585538003258 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 585538003259 dimer interface [polypeptide binding]; other site 585538003260 motif 1; other site 585538003261 active site 585538003262 motif 2; other site 585538003263 motif 3; other site 585538003264 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 585538003265 anticodon binding site; other site 585538003266 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 585538003267 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 585538003268 putative active site [active] 585538003269 elongation factor G; Reviewed; Region: PRK00007 585538003270 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 585538003271 G1 box; other site 585538003272 putative GEF interaction site [polypeptide binding]; other site 585538003273 GTP/Mg2+ binding site [chemical binding]; other site 585538003274 Switch I region; other site 585538003275 G2 box; other site 585538003276 G3 box; other site 585538003277 Switch II region; other site 585538003278 G4 box; other site 585538003279 G5 box; other site 585538003280 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 585538003281 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 585538003282 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 585538003283 30S ribosomal protein S7; Validated; Region: PRK05302 585538003284 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 585538003285 S17 interaction site [polypeptide binding]; other site 585538003286 S8 interaction site; other site 585538003287 16S rRNA interaction site [nucleotide binding]; other site 585538003288 streptomycin interaction site [chemical binding]; other site 585538003289 23S rRNA interaction site [nucleotide binding]; other site 585538003290 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 585538003291 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 585538003292 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 585538003293 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 585538003294 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 585538003295 RPB11 interaction site [polypeptide binding]; other site 585538003296 RPB12 interaction site [polypeptide binding]; other site 585538003297 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 585538003298 RPB3 interaction site [polypeptide binding]; other site 585538003299 RPB1 interaction site [polypeptide binding]; other site 585538003300 RPB11 interaction site [polypeptide binding]; other site 585538003301 RPB10 interaction site [polypeptide binding]; other site 585538003302 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 585538003303 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 585538003304 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 585538003305 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 585538003306 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 585538003307 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 585538003308 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 585538003309 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 585538003310 DNA binding site [nucleotide binding] 585538003311 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 585538003312 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 585538003313 core dimer interface [polypeptide binding]; other site 585538003314 peripheral dimer interface [polypeptide binding]; other site 585538003315 L10 interface [polypeptide binding]; other site 585538003316 L11 interface [polypeptide binding]; other site 585538003317 putative EF-Tu interaction site [polypeptide binding]; other site 585538003318 putative EF-G interaction site [polypeptide binding]; other site 585538003319 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 585538003320 23S rRNA interface [nucleotide binding]; other site 585538003321 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 585538003322 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 585538003323 mRNA/rRNA interface [nucleotide binding]; other site 585538003324 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 585538003325 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 585538003326 23S rRNA interface [nucleotide binding]; other site 585538003327 L7/L12 interface [polypeptide binding]; other site 585538003328 putative thiostrepton binding site; other site 585538003329 L25 interface [polypeptide binding]; other site 585538003330 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 585538003331 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 585538003332 putative homodimer interface [polypeptide binding]; other site 585538003333 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 585538003334 heterodimer interface [polypeptide binding]; other site 585538003335 homodimer interface [polypeptide binding]; other site 585538003336 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 585538003337 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 585538003338 elongation factor Tu; Reviewed; Region: PRK00049 585538003339 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 585538003340 G1 box; other site 585538003341 GEF interaction site [polypeptide binding]; other site 585538003342 GTP/Mg2+ binding site [chemical binding]; other site 585538003343 Switch I region; other site 585538003344 G2 box; other site 585538003345 G3 box; other site 585538003346 Switch II region; other site 585538003347 G4 box; other site 585538003348 G5 box; other site 585538003349 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 585538003350 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 585538003351 Antibiotic Binding Site [chemical binding]; other site 585538003352 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 585538003353 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538003354 Walker A/P-loop; other site 585538003355 ATP binding site [chemical binding]; other site 585538003356 Q-loop/lid; other site 585538003357 ABC transporter signature motif; other site 585538003358 Walker B; other site 585538003359 D-loop; other site 585538003360 H-loop/switch region; other site 585538003361 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 585538003362 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 585538003363 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 585538003364 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 585538003365 ICEA Protein; Region: ICEA; pfam05315 585538003366 ICEA Protein; Region: ICEA; pfam05315 585538003367 serine O-acetyltransferase; Region: cysE; TIGR01172 585538003368 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 585538003369 trimer interface [polypeptide binding]; other site 585538003370 active site 585538003371 substrate binding site [chemical binding]; other site 585538003372 CoA binding site [chemical binding]; other site 585538003373 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 585538003374 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 585538003375 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 585538003376 oligomer interface [polypeptide binding]; other site 585538003377 RNA binding site [nucleotide binding]; other site 585538003378 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 585538003379 oligomer interface [polypeptide binding]; other site 585538003380 RNA binding site [nucleotide binding]; other site 585538003381 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 585538003382 putative nucleic acid binding region [nucleotide binding]; other site 585538003383 G-X-X-G motif; other site 585538003384 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 585538003385 RNA binding site [nucleotide binding]; other site 585538003386 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 585538003387 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 585538003388 Organic solvent tolerance protein; Region: OstA_C; pfam04453 585538003389 Predicted membrane protein/domain [Function unknown]; Region: COG1714 585538003390 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 585538003391 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 585538003392 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 585538003393 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 585538003394 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 585538003395 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 585538003396 Walker A/P-loop; other site 585538003397 ATP binding site [chemical binding]; other site 585538003398 Q-loop/lid; other site 585538003399 ABC transporter signature motif; other site 585538003400 Walker B; other site 585538003401 D-loop; other site 585538003402 H-loop/switch region; other site 585538003403 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 585538003404 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 585538003405 catalytic residue [active] 585538003406 putative FPP diphosphate binding site; other site 585538003407 putative FPP binding hydrophobic cleft; other site 585538003408 dimer interface [polypeptide binding]; other site 585538003409 putative IPP diphosphate binding site; other site 585538003410 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 585538003411 FAD binding domain; Region: FAD_binding_4; pfam01565 585538003412 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 585538003413 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 585538003414 active site residue [active] 585538003415 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 585538003416 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 585538003417 active site 585538003418 camphor resistance protein CrcB; Provisional; Region: PRK14204 585538003419 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 585538003420 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 585538003421 FeS/SAM binding site; other site 585538003422 HemN C-terminal domain; Region: HemN_C; pfam06969 585538003423 Cytochrome c553 [Energy production and conversion]; Region: COG2863 585538003424 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 585538003425 putative active site [active] 585538003426 Ap4A binding site [chemical binding]; other site 585538003427 nudix motif; other site 585538003428 putative metal binding site [ion binding]; other site 585538003429 aspartate kinase; Reviewed; Region: PRK06635 585538003430 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 585538003431 putative nucleotide binding site [chemical binding]; other site 585538003432 putative catalytic residues [active] 585538003433 putative Mg ion binding site [ion binding]; other site 585538003434 putative aspartate binding site [chemical binding]; other site 585538003435 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 585538003436 putative allosteric regulatory site; other site 585538003437 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 585538003438 putative allosteric regulatory residue; other site 585538003439 DNA replication regulator; Region: HobA; pfam12163 585538003440 DNA polymerase III subunit delta'; Validated; Region: PRK08485 585538003441 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 585538003442 dihydropteroate synthase; Region: DHPS; TIGR01496 585538003443 substrate binding pocket [chemical binding]; other site 585538003444 dimer interface [polypeptide binding]; other site 585538003445 inhibitor binding site; inhibition site 585538003446 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 585538003447 EamA-like transporter family; Region: EamA; pfam00892 585538003448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 585538003449 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 585538003450 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 585538003451 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 585538003452 catalytic site [active] 585538003453 subunit interface [polypeptide binding]; other site 585538003454 formamidase; Provisional; Region: amiF; PRK13287 585538003455 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 585538003456 multimer interface [polypeptide binding]; other site 585538003457 active site 585538003458 catalytic triad [active] 585538003459 dimer interface [polypeptide binding]; other site 585538003460 Maf-like protein; Region: Maf; pfam02545 585538003461 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 585538003462 active site 585538003463 dimer interface [polypeptide binding]; other site 585538003464 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 585538003465 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 585538003466 motif 1; other site 585538003467 active site 585538003468 motif 2; other site 585538003469 motif 3; other site 585538003470 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 585538003471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 585538003472 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538003473 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 585538003474 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 585538003475 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 585538003476 dimer interface [polypeptide binding]; other site 585538003477 ssDNA binding site [nucleotide binding]; other site 585538003478 tetramer (dimer of dimers) interface [polypeptide binding]; other site 585538003479 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 585538003480 DNA polymerase III subunit delta; Validated; Region: PRK08487 585538003481 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 585538003482 Exoribonuclease R [Transcription]; Region: VacB; COG0557 585538003483 RNB domain; Region: RNB; pfam00773 585538003484 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 585538003485 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 585538003486 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 585538003487 shikimate binding site; other site 585538003488 NAD(P) binding site [chemical binding]; other site 585538003489 Bacterial SH3 domain; Region: SH3_3; pfam08239 585538003490 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 585538003491 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 585538003492 dimer interface [polypeptide binding]; other site 585538003493 conserved gate region; other site 585538003494 putative PBP binding loops; other site 585538003495 ABC-ATPase subunit interface; other site 585538003496 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 585538003497 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 585538003498 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 585538003499 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 585538003500 active site 585538003501 HIGH motif; other site 585538003502 dimer interface [polypeptide binding]; other site 585538003503 KMSKS motif; other site 585538003504 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 585538003505 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 585538003506 S-adenosylmethionine binding site [chemical binding]; other site 585538003507 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 585538003508 ribosome recycling factor; Reviewed; Region: frr; PRK00083 585538003509 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 585538003510 hinge region; other site 585538003511 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585538003512 active site 585538003513 RDD family; Region: RDD; pfam06271 585538003514 NAD-dependent deacetylase; Provisional; Region: PRK00481 585538003515 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 585538003516 NAD+ binding site [chemical binding]; other site 585538003517 substrate binding site [chemical binding]; other site 585538003518 Zn binding site [ion binding]; other site 585538003519 NADH dehydrogenase subunit A; Validated; Region: PRK08489 585538003520 NADH dehydrogenase subunit B; Validated; Region: PRK06411 585538003521 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 585538003522 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 585538003523 NADH dehydrogenase subunit D; Validated; Region: PRK06075 585538003524 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 585538003525 NADH dehydrogenase subunit G; Validated; Region: PRK08493 585538003526 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 585538003527 catalytic loop [active] 585538003528 iron binding site [ion binding]; other site 585538003529 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 585538003530 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 585538003531 molybdopterin cofactor binding site; other site 585538003532 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 585538003533 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 585538003534 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 585538003535 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 585538003536 4Fe-4S binding domain; Region: Fer4; cl02805 585538003537 4Fe-4S binding domain; Region: Fer4; pfam00037 585538003538 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 585538003539 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 585538003540 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 585538003541 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 585538003542 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 585538003543 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 585538003544 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 585538003545 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 585538003546 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 585538003547 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 585538003548 Outer membrane lipoprotein; Region: YfiO; pfam13525 585538003549 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 585538003550 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 585538003551 active site 585538003552 substrate binding site [chemical binding]; other site 585538003553 metal binding site [ion binding]; metal-binding site 585538003554 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 585538003555 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 585538003556 substrate binding site [chemical binding]; other site 585538003557 active site 585538003558 catalytic residues [active] 585538003559 heterodimer interface [polypeptide binding]; other site 585538003560 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 585538003561 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 585538003562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585538003563 catalytic residue [active] 585538003564 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 585538003565 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 585538003566 active site 585538003567 ribulose/triose binding site [chemical binding]; other site 585538003568 phosphate binding site [ion binding]; other site 585538003569 substrate (anthranilate) binding pocket [chemical binding]; other site 585538003570 product (indole) binding pocket [chemical binding]; other site 585538003571 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 585538003572 active site 585538003573 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 585538003574 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 585538003575 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 585538003576 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 585538003577 Glutamine amidotransferase class-I; Region: GATase; pfam00117 585538003578 glutamine binding [chemical binding]; other site 585538003579 catalytic triad [active] 585538003580 anthranilate synthase component I, proteobacterial subset; Region: trpE_proteo; TIGR00565 585538003581 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 585538003582 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 585538003583 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 585538003584 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 585538003585 putative active site [active] 585538003586 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 585538003587 active site 585538003588 motif I; other site 585538003589 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 585538003590 motif II; other site 585538003591 Uncharacterized conserved protein [Function unknown]; Region: COG2353 585538003592 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 585538003593 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 585538003594 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 585538003595 Thiamine pyrophosphokinase; Region: TPK; cd07995 585538003596 active site 585538003597 dimerization interface [polypeptide binding]; other site 585538003598 thiamine binding site [chemical binding]; other site 585538003599 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 585538003600 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 585538003601 alphaNTD homodimer interface [polypeptide binding]; other site 585538003602 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 585538003603 alphaNTD - beta interaction site [polypeptide binding]; other site 585538003604 alphaNTD - beta' interaction site [polypeptide binding]; other site 585538003605 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 585538003606 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 585538003607 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 585538003608 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 585538003609 RNA binding surface [nucleotide binding]; other site 585538003610 30S ribosomal protein S11; Validated; Region: PRK05309 585538003611 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 585538003612 30S ribosomal protein S13; Region: bact_S13; TIGR03631 585538003613 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 585538003614 rRNA binding site [nucleotide binding]; other site 585538003615 predicted 30S ribosome binding site; other site 585538003616 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 585538003617 active site 585538003618 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 585538003619 SecY translocase; Region: SecY; pfam00344 585538003620 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 585538003621 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 585538003622 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 585538003623 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 585538003624 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 585538003625 23S rRNA interface [nucleotide binding]; other site 585538003626 5S rRNA interface [nucleotide binding]; other site 585538003627 L27 interface [polypeptide binding]; other site 585538003628 L5 interface [polypeptide binding]; other site 585538003629 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 585538003630 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 585538003631 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 585538003632 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 585538003633 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 585538003634 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 585538003635 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 585538003636 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 585538003637 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 585538003638 RNA binding site [nucleotide binding]; other site 585538003639 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 585538003640 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 585538003641 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 585538003642 putative translocon interaction site; other site 585538003643 23S rRNA interface [nucleotide binding]; other site 585538003644 signal recognition particle (SRP54) interaction site; other site 585538003645 L23 interface [polypeptide binding]; other site 585538003646 trigger factor interaction site; other site 585538003647 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 585538003648 23S rRNA interface [nucleotide binding]; other site 585538003649 5S rRNA interface [nucleotide binding]; other site 585538003650 putative antibiotic binding site [chemical binding]; other site 585538003651 L25 interface [polypeptide binding]; other site 585538003652 L27 interface [polypeptide binding]; other site 585538003653 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 585538003654 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 585538003655 G-X-X-G motif; other site 585538003656 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 585538003657 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 585538003658 putative translocon binding site; other site 585538003659 protein-rRNA interface [nucleotide binding]; other site 585538003660 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 585538003661 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 585538003662 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 585538003663 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 585538003664 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 585538003665 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 585538003666 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 585538003667 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 585538003668 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 585538003669 AAA domain; Region: AAA_14; pfam13173 585538003670 Helix-turn-helix domain; Region: HTH_36; pfam13730 585538003671 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 585538003672 RNA/DNA hybrid binding site [nucleotide binding]; other site 585538003673 active site 585538003674 SIR2-like domain; Region: SIR2_2; pfam13289 585538003675 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; cl17189 585538003676 Walker A motif; other site 585538003677 ATP binding site [chemical binding]; other site 585538003678 Walker B motif; other site 585538003679 fumarate hydratase; Reviewed; Region: fumC; PRK00485 585538003680 Class II fumarases; Region: Fumarase_classII; cd01362 585538003681 active site 585538003682 tetramer interface [polypeptide binding]; other site 585538003683 YtkA-like; Region: YtkA; pfam13115 585538003684 Outer membrane efflux protein; Region: OEP; pfam02321 585538003685 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 585538003686 HlyD family secretion protein; Region: HlyD_3; pfam13437 585538003687 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 585538003688 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 585538003689 4-azaleucine resistance probable transporter AzlC; Region: azlC; TIGR00346 585538003690 chaperone protein DnaJ; Provisional; Region: PRK14288 585538003691 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 585538003692 HSP70 interaction site [polypeptide binding]; other site 585538003693 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 585538003694 substrate binding site [polypeptide binding]; other site 585538003695 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 585538003696 Zn binding sites [ion binding]; other site 585538003697 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 585538003698 substrate binding site [polypeptide binding]; other site 585538003699 dimer interface [polypeptide binding]; other site 585538003700 Uncharacterized conserved protein [Function unknown]; Region: COG1432 585538003701 LabA_like proteins; Region: LabA_like; cd06167 585538003702 putative metal binding site [ion binding]; other site 585538003703 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 585538003704 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 585538003705 Ligand Binding Site [chemical binding]; other site 585538003706 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 585538003707 HSP70 interaction site [polypeptide binding]; other site 585538003708 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 585538003709 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 585538003710 active site 585538003711 (T/H)XGH motif; other site 585538003712 nickel responsive regulator; Provisional; Region: PRK00630 585538003713 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 585538003714 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 585538003715 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 585538003716 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 585538003717 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 585538003718 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 585538003719 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 585538003720 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538003721 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 585538003722 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 585538003723 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 585538003724 Acylphosphatase; Region: Acylphosphatase; pfam00708 585538003725 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 585538003726 HypF finger; Region: zf-HYPF; pfam07503 585538003727 HypF finger; Region: zf-HYPF; pfam07503 585538003728 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 585538003729 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 585538003730 dimerization interface [polypeptide binding]; other site 585538003731 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 585538003732 ATP binding site [chemical binding]; other site 585538003733 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 585538003734 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 585538003735 NADP binding site [chemical binding]; other site 585538003736 active site 585538003737 putative substrate binding site [chemical binding]; other site 585538003738 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 585538003739 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 585538003740 NADP-binding site; other site 585538003741 homotetramer interface [polypeptide binding]; other site 585538003742 substrate binding site [chemical binding]; other site 585538003743 homodimer interface [polypeptide binding]; other site 585538003744 active site 585538003745 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 585538003746 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 585538003747 Substrate binding site; other site 585538003748 Cupin domain; Region: Cupin_2; cl17218 585538003749 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 585538003750 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 585538003751 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 585538003752 VirB7 interaction site; other site 585538003753 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 585538003754 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 585538003755 PDZ domain; Region: PDZ_2; pfam13180 585538003756 protein binding site [polypeptide binding]; other site 585538003757 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 585538003758 hypothetical protein; Provisional; Region: PRK03762 585538003759 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 585538003760 tetramerization interface [polypeptide binding]; other site 585538003761 active site 585538003762 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 585538003763 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 585538003764 Walker A motif; other site 585538003765 ATP binding site [chemical binding]; other site 585538003766 Walker B motif; other site 585538003767 arginine finger; other site 585538003768 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 585538003769 Walker A motif; other site 585538003770 ATP binding site [chemical binding]; other site 585538003771 Walker B motif; other site 585538003772 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 585538003773 Uncharacterized conserved protein [Function unknown]; Region: COG2127 585538003774 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 585538003775 Ligand Binding Site [chemical binding]; other site 585538003776 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 585538003777 AAA domain; Region: AAA_26; pfam13500 585538003778 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 585538003779 isocitrate dehydrogenase; Validated; Region: PRK07362 585538003780 isocitrate dehydrogenase; Reviewed; Region: PRK07006 585538003781 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 585538003782 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 585538003783 dimer interface [polypeptide binding]; other site 585538003784 active site 585538003785 citrylCoA binding site [chemical binding]; other site 585538003786 NADH binding [chemical binding]; other site 585538003787 cationic pore residues; other site 585538003788 oxalacetate/citrate binding site [chemical binding]; other site 585538003789 coenzyme A binding site [chemical binding]; other site 585538003790 catalytic triad [active] 585538003791 biotin synthase; Provisional; Region: PRK08508 585538003792 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 585538003793 FeS/SAM binding site; other site 585538003794 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 585538003795 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 585538003796 Uncharacterized conserved protein [Function unknown]; Region: COG1479 585538003797 Protein of unknown function DUF262; Region: DUF262; pfam03235 585538003798 Protein of unknown function DUF262; Region: DUF262; pfam03235 585538003799 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 585538003800 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 585538003801 DHH family; Region: DHH; pfam01368 585538003802 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 585538003803 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 585538003804 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 585538003805 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 585538003806 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 585538003807 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 585538003808 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 585538003809 Ligand binding site; other site 585538003810 metal-binding site 585538003811 Sulfatase; Region: Sulfatase; cl17466 585538003812 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 585538003813 Sulfatase; Region: Sulfatase; pfam00884 585538003814 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 585538003815 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 585538003816 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 585538003817 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 585538003818 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 585538003819 Walker A motif/ATP binding site; other site 585538003820 Walker B motif; other site 585538003821 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 585538003822 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 585538003823 ATP binding site [chemical binding]; other site 585538003824 Walker A motif; other site 585538003825 hexamer interface [polypeptide binding]; other site 585538003826 Walker B motif; other site 585538003827 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 585538003828 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 585538003829 active site 585538003830 HIGH motif; other site 585538003831 nucleotide binding site [chemical binding]; other site 585538003832 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 585538003833 active site 585538003834 KMSKS motif; other site 585538003835 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 585538003836 tRNA binding surface [nucleotide binding]; other site 585538003837 anticodon binding site; other site 585538003838 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 585538003839 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 585538003840 RNA binding surface [nucleotide binding]; other site 585538003841 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 585538003842 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 585538003843 FeS/SAM binding site; other site 585538003844 KpsF/GutQ family protein; Region: kpsF; TIGR00393 585538003845 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 585538003846 putative active site [active] 585538003847 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 585538003848 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 585538003849 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 585538003850 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 585538003851 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 585538003852 dimethyladenosine transferase; Region: ksgA; TIGR00755 585538003853 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 585538003854 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 585538003855 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 585538003856 active site 585538003857 substrate binding site [chemical binding]; other site 585538003858 cosubstrate binding site; other site 585538003859 catalytic site [active] 585538003860 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 585538003861 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 585538003862 tandem repeat interface [polypeptide binding]; other site 585538003863 oligomer interface [polypeptide binding]; other site 585538003864 active site residues [active] 585538003865 TIR domain; Region: TIR_2; cl17458 585538003866 Uncharacterized conserved protein [Function unknown]; Region: COG2433 585538003867 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 585538003868 active site 585538003869 carbon storage regulator; Provisional; Region: PRK00568 585538003870 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 585538003871 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 585538003872 SmpB-tmRNA interface; other site 585538003873 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 585538003874 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 585538003875 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 585538003876 ribonuclease P protein component, eubacterial; Region: rnpA; TIGR00188 585538003877 hypothetical protein; Provisional; Region: PRK14374 585538003878 membrane protein insertase; Provisional; Region: PRK01318 585538003879 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 585538003880 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 585538003881 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 585538003882 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 585538003883 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 585538003884 GTP/Mg2+ binding site [chemical binding]; other site 585538003885 G4 box; other site 585538003886 G5 box; other site 585538003887 trmE is a tRNA modification GTPase; Region: trmE; cd04164 585538003888 G1 box; other site 585538003889 G1 box; other site 585538003890 GTP/Mg2+ binding site [chemical binding]; other site 585538003891 Switch I region; other site 585538003892 Switch I region; other site 585538003893 G2 box; other site 585538003894 G2 box; other site 585538003895 Switch II region; other site 585538003896 G3 box; other site 585538003897 G3 box; other site 585538003898 Switch II region; other site 585538003899 G4 box; other site 585538003900 G5 box; other site 585538003901 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 585538003902 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538003903 LPP20 lipoprotein; Region: LPP20; pfam02169 585538003904 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 585538003905 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 585538003906 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 585538003907 catalytic residues [active] 585538003908 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 585538003909 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 585538003910 RNA binding surface [nucleotide binding]; other site 585538003911 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 585538003912 active site 585538003913 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 585538003914 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 585538003915 active site 585538003916 PHP Thumb interface [polypeptide binding]; other site 585538003917 metal binding site [ion binding]; metal-binding site 585538003918 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 585538003919 generic binding surface I; other site 585538003920 generic binding surface II; other site 585538003921 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 585538003922 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 585538003923 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 585538003924 mce related protein; Region: MCE; pfam02470 585538003925 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 585538003926 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 585538003927 Walker A/P-loop; other site 585538003928 ATP binding site [chemical binding]; other site 585538003929 Q-loop/lid; other site 585538003930 ABC transporter signature motif; other site 585538003931 Walker B; other site 585538003932 D-loop; other site 585538003933 H-loop/switch region; other site 585538003934 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 585538003935 conserved hypothetical integral membrane protein; Region: TIGR00056 585538003936 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538003937 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 585538003938 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 585538003939 homodimer interface [polypeptide binding]; other site 585538003940 substrate-cofactor binding pocket; other site 585538003941 catalytic residue [active] 585538003942 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538003943 DNA polymerase I; Region: pola; TIGR00593 585538003944 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 585538003945 active site 585538003946 metal binding site 1 [ion binding]; metal-binding site 585538003947 putative 5' ssDNA interaction site; other site 585538003948 metal binding site 3; metal-binding site 585538003949 metal binding site 2 [ion binding]; metal-binding site 585538003950 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 585538003951 putative DNA binding site [nucleotide binding]; other site 585538003952 putative metal binding site [ion binding]; other site 585538003953 3'-5' exonuclease; Region: 35EXOc; smart00474 585538003954 active site 585538003955 substrate binding site [chemical binding]; other site 585538003956 catalytic site [active] 585538003957 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 585538003958 active site 585538003959 DNA binding site [nucleotide binding] 585538003960 catalytic site [active] 585538003961 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 585538003962 non-specific DNA binding site [nucleotide binding]; other site 585538003963 salt bridge; other site 585538003964 sequence-specific DNA binding site [nucleotide binding]; other site 585538003965 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 585538003966 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 585538003967 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538003968 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 585538003969 thymidylate kinase; Validated; Region: tmk; PRK00698 585538003970 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 585538003971 TMP-binding site; other site 585538003972 ATP-binding site [chemical binding]; other site 585538003973 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 585538003974 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 585538003975 active site 585538003976 (T/H)XGH motif; other site 585538003977 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 585538003978 Flavoprotein; Region: Flavoprotein; pfam02441 585538003979 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 585538003980 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 585538003981 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 585538003982 Part of AAA domain; Region: AAA_19; pfam13245 585538003983 Family description; Region: UvrD_C_2; pfam13538 585538003984 TPR repeat; Region: TPR_11; pfam13414 585538003985 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 585538003986 TPR motif; other site 585538003987 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 585538003988 binding surface 585538003989 TPR motif; other site 585538003990 seryl-tRNA synthetase; Provisional; Region: PRK05431 585538003991 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 585538003992 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 585538003993 dimer interface [polypeptide binding]; other site 585538003994 active site 585538003995 motif 1; other site 585538003996 motif 2; other site 585538003997 motif 3; other site 585538003998 Predicted amidohydrolase [General function prediction only]; Region: COG0388 585538003999 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 585538004000 active site 585538004001 catalytic triad [active] 585538004002 dimer interface [polypeptide binding]; other site 585538004003 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14065 585538004004 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 585538004005 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 585538004006 S-adenosylmethionine binding site [chemical binding]; other site 585538004007 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 585538004008 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 585538004009 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 585538004010 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 585538004011 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 585538004012 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 585538004013 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 585538004014 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585538004015 HlyD family secretion protein; Region: HlyD_3; pfam13437 585538004016 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 585538004017 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 585538004018 Domain of unknown function DUF21; Region: DUF21; pfam01595 585538004019 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 585538004020 Transporter associated domain; Region: CorC_HlyC; smart01091 585538004021 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 585538004022 Phosphate transporter family; Region: PHO4; pfam01384 585538004023 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 585538004024 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 585538004025 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 585538004026 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 585538004027 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 585538004028 putative active site [active] 585538004029 transaldolase; Provisional; Region: PRK03903 585538004030 catalytic residue [active] 585538004031 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 585538004032 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 585538004033 5S rRNA interface [nucleotide binding]; other site 585538004034 CTC domain interface [polypeptide binding]; other site 585538004035 L16 interface [polypeptide binding]; other site 585538004036 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 585538004037 putative active site [active] 585538004038 catalytic residue [active] 585538004039 Predicted permeases [General function prediction only]; Region: COG0795 585538004040 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 585538004041 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 585538004042 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 585538004043 potential frameshift: common BLAST hit: gi|108563838|ref|YP_628154.1| type II adenine specific DNA methyltransferase 585538004044 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 585538004045 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 585538004046 potential frameshift: common BLAST hit: gi|298735529|ref|YP_003728050.1| putative endonuclease 585538004047 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 585538004048 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 585538004049 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538004050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 585538004051 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 585538004052 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 585538004053 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 585538004054 metal-binding site [ion binding] 585538004055 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 585538004056 Soluble P-type ATPase [General function prediction only]; Region: COG4087 585538004057 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 585538004058 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 585538004059 S-adenosylmethionine binding site [chemical binding]; other site 585538004060 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 585538004061 catalytic motif [active] 585538004062 Zn binding site [ion binding]; other site 585538004063 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 585538004064 RibD C-terminal domain; Region: RibD_C; cl17279 585538004065 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 585538004066 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 585538004067 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 585538004068 4Fe-4S binding domain; Region: Fer4_5; pfam12801 585538004069 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 585538004070 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 585538004071 FolB domain; Region: folB_dom; TIGR00526 585538004072 active site 585538004073 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 585538004074 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 585538004075 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 585538004076 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 585538004077 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 585538004078 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 585538004079 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 585538004080 NusA N-terminal domain; Region: NusA_N; pfam08529 585538004081 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 585538004082 RNA binding site [nucleotide binding]; other site 585538004083 homodimer interface [polypeptide binding]; other site 585538004084 NusA-like KH domain; Region: KH_5; pfam13184 585538004085 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 585538004086 G-X-X-G motif; other site 585538004087 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 585538004088 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 585538004089 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 585538004090 AAA domain; Region: AAA_21; pfam13304 585538004091 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 585538004092 ABC transporter signature motif; other site 585538004093 Walker B; other site 585538004094 D-loop; other site 585538004095 H-loop/switch region; other site 585538004096 potential frameshift: common BLAST hit: gi|188527681|ref|YP_001910368.1| PARA protein 585538004097 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 585538004098 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 585538004099 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 585538004100 Methyltransferase domain; Region: Methyltransf_26; pfam13659 585538004101 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 585538004102 DEAD-like helicases superfamily; Region: DEXDc; smart00487 585538004103 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 585538004104 helicase superfamily c-terminal domain; Region: HELICc; smart00490 585538004105 nucleotide binding region [chemical binding]; other site 585538004106 ATP-binding site [chemical binding]; other site 585538004107 potential frameshift: common BLAST hit: gi|308185123|ref|YP_003929256.1| periplasmic competence protein-like protein 585538004108 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 585538004109 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 585538004110 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 585538004111 active site 585538004112 catalytic residues [active] 585538004113 DNA binding site [nucleotide binding] 585538004114 Int/Topo IB signature motif; other site 585538004115 potential frameshift: common BLAST hit: gi|85859883|ref|YP_462085.1| cytoplasmic protein 585538004116 Restriction endonuclease [Defense mechanisms]; Region: COG3587 585538004117 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 585538004118 ATP binding site [chemical binding]; other site 585538004119 putative Mg++ binding site [ion binding]; other site 585538004120 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 585538004121 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 585538004122 DNA methylase; Region: N6_N4_Mtase; cl17433 585538004123 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538004124 DNA methylase; Region: N6_N4_Mtase; pfam01555 585538004125 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 585538004126 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 585538004127 ssDNA binding site; other site 585538004128 generic binding surface II; other site 585538004129 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 585538004130 ATP binding site [chemical binding]; other site 585538004131 putative Mg++ binding site [ion binding]; other site 585538004132 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 585538004133 nucleotide binding region [chemical binding]; other site 585538004134 ATP-binding site [chemical binding]; other site 585538004135 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538004136 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 585538004137 active site 585538004138 putative catalytic site [active] 585538004139 DNA binding site [nucleotide binding] 585538004140 putative phosphate binding site [ion binding]; other site 585538004141 metal binding site A [ion binding]; metal-binding site 585538004142 AP binding site [nucleotide binding]; other site 585538004143 metal binding site B [ion binding]; metal-binding site 585538004144 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 585538004145 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 585538004146 Walker A motif; other site 585538004147 ATP binding site [chemical binding]; other site 585538004148 Walker B motif; other site 585538004149 arginine finger; other site 585538004150 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 585538004151 DnaA box-binding interface [nucleotide binding]; other site 585538004152 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 585538004153 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 585538004154 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 585538004155 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 585538004156 glutaminase active site [active] 585538004157 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 585538004158 dimer interface [polypeptide binding]; other site 585538004159 active site 585538004160 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 585538004161 dimer interface [polypeptide binding]; other site 585538004162 active site 585538004163 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 585538004164 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 585538004165 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 585538004166 HsdM N-terminal domain; Region: HsdM_N; pfam12161 585538004167 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 585538004168 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 585538004169 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 585538004170 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 585538004171 ATP binding site [chemical binding]; other site 585538004172 putative Mg++ binding site [ion binding]; other site 585538004173 Protein of unknown function DUF45; Region: DUF45; pfam01863 585538004174 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 585538004175 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 585538004176 N-terminal plug; other site 585538004177 ligand-binding site [chemical binding]; other site 585538004178 Arginase family; Region: Arginase; cd09989 585538004179 active site 585538004180 Mn binding site [ion binding]; other site 585538004181 oligomer interface [polypeptide binding]; other site 585538004182 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 585538004183 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 585538004184 hexamer interface [polypeptide binding]; other site 585538004185 ligand binding site [chemical binding]; other site 585538004186 putative active site [active] 585538004187 NAD(P) binding site [chemical binding]; other site 585538004188 Uncharacterized conserved protein [Function unknown]; Region: COG1479 585538004189 Protein of unknown function DUF262; Region: DUF262; pfam03235 585538004190 Protein of unknown function DUF262; Region: DUF262; pfam03235 585538004191 Uncharacterized conserved protein [Function unknown]; Region: COG1479 585538004192 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 585538004193 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 585538004194 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 585538004195 ATP-NAD kinase; Region: NAD_kinase; pfam01513 585538004196 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 585538004197 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585538004198 Walker A/P-loop; other site 585538004199 ATP binding site [chemical binding]; other site 585538004200 Q-loop/lid; other site 585538004201 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 585538004202 ABC transporter signature motif; other site 585538004203 Walker B; other site 585538004204 D-loop; other site 585538004205 H-loop/switch region; other site 585538004206 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 585538004207 Domain of unknown function (DUF814); Region: DUF814; pfam05670 585538004208 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 585538004209 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 585538004210 active site 585538004211 catalytic site [active] 585538004212 substrate binding site [chemical binding]; other site 585538004213 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 585538004214 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 585538004215 substrate binding site [chemical binding]; other site 585538004216 hexamer interface [polypeptide binding]; other site 585538004217 metal binding site [ion binding]; metal-binding site 585538004218 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 585538004219 active site 585538004220 Methyltransferase domain; Region: Methyltransf_26; pfam13659 585538004221 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 585538004222 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 585538004223 cofactor binding site; other site 585538004224 DNA binding site [nucleotide binding] 585538004225 substrate interaction site [chemical binding]; other site 585538004226 elongation factor Ts; Provisional; Region: tsf; PRK09377 585538004227 UBA/TS-N domain; Region: UBA; pfam00627 585538004228 Elongation factor TS; Region: EF_TS; pfam00889 585538004229 Elongation factor TS; Region: EF_TS; pfam00889 585538004230 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 585538004231 rRNA interaction site [nucleotide binding]; other site 585538004232 S8 interaction site; other site 585538004233 putative laminin-1 binding site; other site 585538004234 putative recombination protein RecB; Provisional; Region: PRK13909 585538004235 Family description; Region: UvrD_C_2; pfam13538 585538004236 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 585538004237 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 585538004238 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 585538004239 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 585538004240 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 585538004241 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 585538004242 Protein export membrane protein; Region: SecD_SecF; pfam02355 585538004243 potential frameshift: common BLAST hit: gi|188528338|ref|YP_001911025.1| leucyl-tRNA synthetase 585538004244 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 585538004245 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 585538004246 HIGH motif; other site 585538004247 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 585538004248 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 585538004249 active site 585538004250 KMSKS motif; other site 585538004251 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 585538004252 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 585538004253 Lipopolysaccharide-assembly; Region: LptE; pfam04390 585538004254 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 585538004255 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 585538004256 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 585538004257 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 585538004258 Peptidase family M23; Region: Peptidase_M23; pfam01551 585538004259 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 585538004260 Peptidase family M23; Region: Peptidase_M23; pfam01551 585538004261 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 585538004262 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 585538004263 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 585538004264 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 585538004265 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 585538004266 ATP binding site [chemical binding]; other site 585538004267 putative Mg++ binding site [ion binding]; other site 585538004268 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 585538004269 nucleotide binding region [chemical binding]; other site 585538004270 ATP-binding site [chemical binding]; other site 585538004271 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 585538004272 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 585538004273 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 585538004274 [2Fe-2S] cluster binding site [ion binding]; other site 585538004275 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 585538004276 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 585538004277 intrachain domain interface; other site 585538004278 interchain domain interface [polypeptide binding]; other site 585538004279 heme bH binding site [chemical binding]; other site 585538004280 Qi binding site; other site 585538004281 heme bL binding site [chemical binding]; other site 585538004282 Qo binding site; other site 585538004283 interchain domain interface [polypeptide binding]; other site 585538004284 intrachain domain interface; other site 585538004285 Qi binding site; other site 585538004286 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 585538004287 Qo binding site; other site 585538004288 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 585538004289 Cytochrome c; Region: Cytochrom_C; pfam00034 585538004290 Cytochrome c; Region: Cytochrom_C; cl11414 585538004291 Sulfatase; Region: Sulfatase; cl17466 585538004292 Sulfatase; Region: Sulfatase; cl17466 585538004293 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 585538004294 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 585538004295 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 585538004296 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 585538004297 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 585538004298 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 585538004299 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 585538004300 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 585538004301 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 585538004302 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 585538004303 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 585538004304 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 585538004305 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 585538004306 dimer interface [polypeptide binding]; other site 585538004307 decamer (pentamer of dimers) interface [polypeptide binding]; other site 585538004308 catalytic triad [active] 585538004309 peroxidatic and resolving cysteines [active] 585538004310 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 585538004311 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 585538004312 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 585538004313 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 585538004314 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 585538004315 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 585538004316 G1 box; other site 585538004317 GTP/Mg2+ binding site [chemical binding]; other site 585538004318 Switch I region; other site 585538004319 G2 box; other site 585538004320 G3 box; other site 585538004321 Switch II region; other site 585538004322 G4 box; other site 585538004323 G5 box; other site 585538004324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 585538004325 OstA-like protein; Region: OstA; pfam03968 585538004326 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 585538004327 motif II; other site 585538004328 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 585538004329 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 585538004330 Sporulation related domain; Region: SPOR; pfam05036 585538004331 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 585538004332 N-acetyl-D-glucosamine binding site [chemical binding]; other site 585538004333 catalytic residue [active] 585538004334 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 585538004335 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 585538004336 active site 585538004337 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 585538004338 Lumazine binding domain; Region: Lum_binding; pfam00677 585538004339 Lumazine binding domain; Region: Lum_binding; pfam00677 585538004340 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 585538004341 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 585538004342 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 585538004343 Walker A/P-loop; other site 585538004344 ATP binding site [chemical binding]; other site 585538004345 Q-loop/lid; other site 585538004346 ABC transporter signature motif; other site 585538004347 Walker B; other site 585538004348 D-loop; other site 585538004349 H-loop/switch region; other site 585538004350 NIL domain; Region: NIL; pfam09383 585538004351 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 585538004352 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 585538004353 PAP2_like_5 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_5; cd03394 585538004354 active site 585538004355 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 585538004356 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 585538004357 Mg++ binding site [ion binding]; other site 585538004358 putative catalytic motif [active] 585538004359 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 585538004360 active site 585538004361 hydrophilic channel; other site 585538004362 dimerization interface [polypeptide binding]; other site 585538004363 catalytic residues [active] 585538004364 active site lid [active] 585538004365 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 585538004366 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 585538004367 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 585538004368 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 585538004369 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 585538004370 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 585538004371 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 585538004372 hypothetical protein; Provisional; Region: PRK10236 585538004373 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 585538004374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735