-- dump date 20140619_114259 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1055530000001 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 1055530000002 putative RNA binding site [nucleotide binding]; other site 1055530000003 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 1055530000004 homopentamer interface [polypeptide binding]; other site 1055530000005 active site 1055530000006 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1055530000007 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1055530000008 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 1055530000009 active site clefts [active] 1055530000010 zinc binding site [ion binding]; other site 1055530000011 dimer interface [polypeptide binding]; other site 1055530000012 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 1055530000013 active site 1055530000014 dimer interface [polypeptide binding]; other site 1055530000015 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1055530000016 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1055530000017 active site 1055530000018 ATP-binding site [chemical binding]; other site 1055530000019 pantoate-binding site; other site 1055530000020 HXXH motif; other site 1055530000021 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530000022 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1055530000023 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 1055530000024 ring oligomerisation interface [polypeptide binding]; other site 1055530000025 ATP/Mg binding site [chemical binding]; other site 1055530000026 stacking interactions; other site 1055530000027 hinge regions; other site 1055530000028 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 1055530000029 oligomerisation interface [polypeptide binding]; other site 1055530000030 mobile loop; other site 1055530000031 roof hairpin; other site 1055530000032 DNA primase, catalytic core; Region: dnaG; TIGR01391 1055530000033 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1055530000034 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1055530000035 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 1055530000036 active site 1055530000037 metal binding site [ion binding]; metal-binding site 1055530000038 interdomain interaction site; other site 1055530000039 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1055530000040 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 1055530000041 Ligand Binding Site [chemical binding]; other site 1055530000042 TrbC/VIRB2 family; Region: TrbC; cl01583 1055530000043 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1055530000044 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1055530000045 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 1055530000046 Walker A motif; other site 1055530000047 ATP binding site [chemical binding]; other site 1055530000048 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1055530000049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 1055530000050 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 1055530000051 Response regulator receiver domain; Region: Response_reg; pfam00072 1055530000052 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 1055530000053 active site 1055530000054 phosphorylation site [posttranslational modification] 1055530000055 intermolecular recognition site; other site 1055530000056 dimerization interface [polypeptide binding]; other site 1055530000057 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1055530000058 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1055530000059 dimer interface [polypeptide binding]; other site 1055530000060 active site 1055530000061 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1055530000062 catalytic residues [active] 1055530000063 substrate binding site [chemical binding]; other site 1055530000064 lipid A 1-phosphatase; Reviewed; Region: PRK09597 1055530000065 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1055530000066 active site 1055530000067 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 1055530000068 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1055530000069 Sulfatase; Region: Sulfatase; pfam00884 1055530000070 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530000071 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 1055530000072 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1055530000073 dimer interface [polypeptide binding]; other site 1055530000074 active site 1055530000075 citrylCoA binding site [chemical binding]; other site 1055530000076 NADH binding [chemical binding]; other site 1055530000077 cationic pore residues; other site 1055530000078 oxalacetate/citrate binding site [chemical binding]; other site 1055530000079 coenzyme A binding site [chemical binding]; other site 1055530000080 catalytic triad [active] 1055530000081 isocitrate dehydrogenase; Validated; Region: PRK07362 1055530000082 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1055530000083 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 1055530000084 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1055530000085 AAA domain; Region: AAA_26; pfam13500 1055530000086 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 1055530000087 Ligand Binding Site [chemical binding]; other site 1055530000088 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 1055530000089 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1055530000090 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 1055530000091 Walker A motif; other site 1055530000092 ATP binding site [chemical binding]; other site 1055530000093 Walker B motif; other site 1055530000094 arginine finger; other site 1055530000095 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 1055530000096 Walker A motif; other site 1055530000097 ATP binding site [chemical binding]; other site 1055530000098 Walker B motif; other site 1055530000099 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1055530000100 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1055530000101 tetramerization interface [polypeptide binding]; other site 1055530000102 active site 1055530000103 hypothetical protein; Provisional; Region: PRK03762 1055530000104 PDZ domain; Region: PDZ_2; pfam13180 1055530000105 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 1055530000106 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1055530000107 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1055530000108 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1055530000109 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1055530000110 VirB7 interaction site; other site 1055530000111 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1055530000112 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1055530000113 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1055530000114 Substrate binding site; other site 1055530000115 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1055530000116 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 1055530000117 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1055530000118 NADP-binding site; other site 1055530000119 homotetramer interface [polypeptide binding]; other site 1055530000120 substrate binding site [chemical binding]; other site 1055530000121 homodimer interface [polypeptide binding]; other site 1055530000122 active site 1055530000123 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1055530000124 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1055530000125 NADP binding site [chemical binding]; other site 1055530000126 active site 1055530000127 putative substrate binding site [chemical binding]; other site 1055530000128 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 1055530000129 dimerization interface [polypeptide binding]; other site 1055530000130 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1055530000131 ATP binding site [chemical binding]; other site 1055530000132 Acylphosphatase; Region: Acylphosphatase; pfam00708 1055530000133 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 1055530000134 HypF finger; Region: zf-HYPF; pfam07503 1055530000135 HypF finger; Region: zf-HYPF; pfam07503 1055530000136 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1055530000137 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 1055530000138 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1055530000139 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1055530000140 DNA methylase; Region: N6_N4_Mtase; pfam01555 1055530000141 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1055530000142 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 1055530000143 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1055530000144 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1055530000145 Na binding site [ion binding]; other site 1055530000146 Proline dehydrogenase; Region: Pro_dh; pfam01619 1055530000147 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1055530000148 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1055530000149 Glutamate binding site [chemical binding]; other site 1055530000150 NAD binding site [chemical binding]; other site 1055530000151 catalytic residues [active] 1055530000152 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 1055530000153 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 1055530000154 potential frameshift: common BLAST hit: gi|188527674|ref|YP_001910361.1| integrase/recombinase (xerD) 1055530000155 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 1055530000156 DNA binding site [nucleotide binding] 1055530000157 active site 1055530000158 Int/Topo IB signature motif; other site 1055530000159 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 1055530000160 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1055530000161 potential frameshift: common BLAST hit: gi|308185123|ref|YP_003929256.1| periplasmic competence protein-like protein 1055530000162 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1055530000163 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1055530000164 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1055530000165 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1055530000166 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1055530000167 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1055530000168 nucleotide binding region [chemical binding]; other site 1055530000169 ATP-binding site [chemical binding]; other site 1055530000170 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1055530000171 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 1055530000172 P-loop; other site 1055530000173 Magnesium ion binding site [ion binding]; other site 1055530000174 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1055530000175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1055530000176 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1055530000177 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 1055530000178 Walker A motif; other site 1055530000179 ATP binding site [chemical binding]; other site 1055530000180 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1055530000181 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1055530000182 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 1055530000183 Walker A motif; other site 1055530000184 hexamer interface [polypeptide binding]; other site 1055530000185 ATP binding site [chemical binding]; other site 1055530000186 Walker B motif; other site 1055530000187 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1055530000188 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1055530000189 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1055530000190 VirB7 interaction site; other site 1055530000191 VirB8 protein; Region: VirB8; cl01500 1055530000192 potential frameshift: common BLAST hit: gi|188527700|ref|YP_001910387.1| topoisomerase I 1055530000193 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 1055530000194 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1055530000195 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1055530000196 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1055530000197 Toprim-like; Region: Toprim_2; pfam13155 1055530000198 potential frameshift: common BLAST hit: gi|15644696|ref|NP_206866.1| ATP-binding protein 1055530000199 potential frameshift: common BLAST hit: gi|108562492|ref|YP_626808.1| ATP-binding protein 1055530000200 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1055530000201 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1055530000202 G1 box; other site 1055530000203 GTP/Mg2+ binding site [chemical binding]; other site 1055530000204 G2 box; other site 1055530000205 Switch I region; other site 1055530000206 G3 box; other site 1055530000207 Switch II region; other site 1055530000208 G4 box; other site 1055530000209 G5 box; other site 1055530000210 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1055530000211 UreF; Region: UreF; pfam01730 1055530000212 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1055530000213 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 1055530000214 dimer interface [polypeptide binding]; other site 1055530000215 catalytic residues [active] 1055530000216 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 1055530000217 urease subunit beta; Provisional; Region: ureB; PRK13985 1055530000218 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 1055530000219 subunit interactions [polypeptide binding]; other site 1055530000220 active site 1055530000221 flap region; other site 1055530000222 urease subunit alpha; Provisional; Region: PRK13986 1055530000223 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 1055530000224 alpha-gamma subunit interface [polypeptide binding]; other site 1055530000225 beta-gamma subunit interface [polypeptide binding]; other site 1055530000226 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 1055530000227 gamma-beta subunit interface [polypeptide binding]; other site 1055530000228 alpha-beta subunit interface [polypeptide binding]; other site 1055530000229 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1055530000230 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 1055530000231 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 1055530000232 active site 1055530000233 substrate binding site [chemical binding]; other site 1055530000234 metal binding site [ion binding]; metal-binding site 1055530000235 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1055530000236 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1055530000237 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1055530000238 RF-1 domain; Region: RF-1; pfam00472 1055530000239 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530000240 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1055530000241 dimer interface [polypeptide binding]; other site 1055530000242 putative CheW interface [polypeptide binding]; other site 1055530000243 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1055530000244 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 1055530000245 23S rRNA interface [nucleotide binding]; other site 1055530000246 L3 interface [polypeptide binding]; other site 1055530000247 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 1055530000248 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1055530000249 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 1055530000250 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 1055530000251 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 1055530000252 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1055530000253 NlpC/P60 family; Region: NLPC_P60; pfam00877 1055530000254 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1055530000255 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1055530000256 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1055530000257 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1055530000258 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 1055530000259 DNA binding residues [nucleotide binding] 1055530000260 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1055530000261 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1055530000262 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1055530000263 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1055530000264 potential protein location (hypothetical protein HPSNT_00625 [Helicobacter pylori Santal49]) that overlaps RNA (tRNA-S) 1055530000265 Protein of unknown function (DUF511); Region: DUF511; pfam04373 1055530000266 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1055530000267 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 1055530000268 DNA methylase; Region: N6_N4_Mtase; pfam01555 1055530000269 potential frameshift: common BLAST hit: gi|188526899|ref|YP_001909586.1| alpha-1,2-fucosyltransferase 1055530000270 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 1055530000271 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1055530000272 putative ligand binding site [chemical binding]; other site 1055530000273 putative NAD binding site [chemical binding]; other site 1055530000274 catalytic site [active] 1055530000275 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1055530000276 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 1055530000277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1055530000278 catalytic residue [active] 1055530000279 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1055530000280 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1055530000281 dimer interface [polypeptide binding]; other site 1055530000282 putative CheW interface [polypeptide binding]; other site 1055530000283 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 1055530000284 Ligand Binding Site [chemical binding]; other site 1055530000285 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530000286 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1055530000287 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 1055530000288 metal-binding site 1055530000289 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 1055530000290 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1055530000291 dimerization interface [polypeptide binding]; other site 1055530000292 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1055530000293 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1055530000294 dimer interface [polypeptide binding]; other site 1055530000295 putative CheW interface [polypeptide binding]; other site 1055530000296 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1055530000297 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1055530000298 active site 1055530000299 metal binding site [ion binding]; metal-binding site 1055530000300 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1055530000301 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1055530000302 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 1055530000303 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 1055530000304 homodimer interface [polypeptide binding]; other site 1055530000305 substrate-cofactor binding pocket; other site 1055530000306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1055530000307 catalytic residue [active] 1055530000308 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1055530000309 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 1055530000310 dimer interface [polypeptide binding]; other site 1055530000311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1055530000312 catalytic residue [active] 1055530000313 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1055530000314 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1055530000315 nucleotide binding site [chemical binding]; other site 1055530000316 NEF interaction site [polypeptide binding]; other site 1055530000317 SBD interface [polypeptide binding]; other site 1055530000318 GrpE; Region: GrpE; pfam01025 1055530000319 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 1055530000320 dimer interface [polypeptide binding]; other site 1055530000321 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1055530000322 heat-inducible transcription repressor; Provisional; Region: PRK03911 1055530000323 hypothetical protein; Provisional; Region: PRK05834 1055530000324 intersubunit interface [polypeptide binding]; other site 1055530000325 active site 1055530000326 Zn2+ binding site [ion binding]; other site 1055530000327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 1055530000328 flagellin B; Provisional; Region: PRK13588 1055530000329 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1055530000330 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1055530000331 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1055530000332 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1055530000333 DNA topoisomerase I; Validated; Region: PRK05582 1055530000334 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 1055530000335 active site 1055530000336 interdomain interaction site; other site 1055530000337 putative metal-binding site [ion binding]; other site 1055530000338 nucleotide binding site [chemical binding]; other site 1055530000339 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 1055530000340 domain I; other site 1055530000341 DNA binding groove [nucleotide binding] 1055530000342 phosphate binding site [ion binding]; other site 1055530000343 domain II; other site 1055530000344 domain III; other site 1055530000345 nucleotide binding site [chemical binding]; other site 1055530000346 catalytic site [active] 1055530000347 domain IV; other site 1055530000348 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1055530000349 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1055530000350 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1055530000351 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 1055530000352 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 1055530000353 FeS/SAM binding site; other site 1055530000354 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 1055530000355 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1055530000356 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1055530000357 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1055530000358 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1055530000359 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 1055530000360 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1055530000361 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 1055530000362 active site 1055530000363 dimer interface [polypeptide binding]; other site 1055530000364 motif 1; other site 1055530000365 motif 2; other site 1055530000366 motif 3; other site 1055530000367 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 1055530000368 anticodon binding site; other site 1055530000369 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1055530000370 translation initiation factor IF-3; Region: infC; TIGR00168 1055530000371 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1055530000372 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1055530000373 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1055530000374 23S rRNA binding site [nucleotide binding]; other site 1055530000375 L21 binding site [polypeptide binding]; other site 1055530000376 L13 binding site [polypeptide binding]; other site 1055530000377 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530000378 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1055530000379 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1055530000380 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1055530000381 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1055530000382 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1055530000383 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1055530000384 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 1055530000385 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1055530000386 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 1055530000387 catalytic triad [active] 1055530000388 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1055530000389 iron-sulfur cluster-binding protein; Region: TIGR00273 1055530000390 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1055530000391 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1055530000392 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1055530000393 Cysteine-rich domain; Region: CCG; pfam02754 1055530000394 Cysteine-rich domain; Region: CCG; pfam02754 1055530000395 L-lactate transport; Region: lctP; TIGR00795 1055530000396 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1055530000397 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1055530000398 L-lactate transport; Region: lctP; TIGR00795 1055530000399 DNA glycosylase MutY; Provisional; Region: PRK13910 1055530000400 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1055530000401 minor groove reading motif; other site 1055530000402 helix-hairpin-helix signature motif; other site 1055530000403 substrate binding pocket [chemical binding]; other site 1055530000404 active site 1055530000405 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 1055530000406 DNA binding and oxoG recognition site [nucleotide binding] 1055530000407 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1055530000408 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 1055530000409 transmembrane helices; other site 1055530000410 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 1055530000411 Low-spin heme binding site [chemical binding]; other site 1055530000412 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1055530000413 D-pathway; other site 1055530000414 Putative water exit pathway; other site 1055530000415 Binuclear center (active site) [active] 1055530000416 K-pathway; other site 1055530000417 Putative proton exit pathway; other site 1055530000418 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1055530000419 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1055530000420 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 1055530000421 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1055530000422 Cytochrome c; Region: Cytochrom_C; pfam00034 1055530000423 Cytochrome c; Region: Cytochrom_C; pfam00034 1055530000424 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 1055530000425 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 1055530000426 recombinase A; Provisional; Region: recA; PRK09354 1055530000427 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 1055530000428 hexamer interface [polypeptide binding]; other site 1055530000429 Walker A motif; other site 1055530000430 ATP binding site [chemical binding]; other site 1055530000431 Walker B motif; other site 1055530000432 enolase; Provisional; Region: eno; PRK00077 1055530000433 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 1055530000434 dimer interface [polypeptide binding]; other site 1055530000435 metal binding site [ion binding]; metal-binding site 1055530000436 substrate binding pocket [chemical binding]; other site 1055530000437 AMIN domain; Region: AMIN; pfam11741 1055530000438 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1055530000439 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 1055530000440 ADP binding site [chemical binding]; other site 1055530000441 magnesium binding site [ion binding]; other site 1055530000442 putative shikimate binding site; other site 1055530000443 Cache domain; Region: Cache_1; pfam02743 1055530000444 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1055530000445 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 1055530000446 Ligand binding site; other site 1055530000447 metal-binding site 1055530000448 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1055530000449 Sel1-like repeats; Region: SEL1; smart00671 1055530000450 Sel1-like repeats; Region: SEL1; smart00671 1055530000451 Sel1-like repeats; Region: SEL1; smart00671 1055530000452 Sel1-like repeats; Region: SEL1; smart00671 1055530000453 Sel1-like repeats; Region: SEL1; smart00671 1055530000454 Sel1-like repeats; Region: SEL1; smart00671 1055530000455 hypothetical protein; Provisional; Region: PRK12378 1055530000456 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 1055530000457 dimer interface [polypeptide binding]; other site 1055530000458 active site 1055530000459 Schiff base residues; other site 1055530000460 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1055530000461 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1055530000462 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 1055530000463 dimer interface [polypeptide binding]; other site 1055530000464 phosphorylation site [posttranslational modification] 1055530000465 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 1055530000466 ATP binding site [chemical binding]; other site 1055530000467 Mg2+ binding site [ion binding]; other site 1055530000468 G-X-G motif; other site 1055530000469 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1055530000470 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 1055530000471 active site 1055530000472 phosphorylation site [posttranslational modification] 1055530000473 intermolecular recognition site; other site 1055530000474 dimerization interface [polypeptide binding]; other site 1055530000475 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 1055530000476 DNA binding site [nucleotide binding] 1055530000477 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1055530000478 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1055530000479 Peptidase family U32; Region: Peptidase_U32; pfam01136 1055530000480 peptide chain release factor 2; Region: prfB; TIGR00020 1055530000481 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1055530000482 RF-1 domain; Region: RF-1; pfam00472 1055530000483 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1055530000484 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1055530000485 dimer interface [polypeptide binding]; other site 1055530000486 putative functional site; other site 1055530000487 putative MPT binding site; other site 1055530000488 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 1055530000489 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1055530000490 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1055530000491 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1055530000492 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 1055530000493 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1055530000494 intersubunit interface [polypeptide binding]; other site 1055530000495 active site 1055530000496 zinc binding site [ion binding]; other site 1055530000497 Na+ binding site [ion binding]; other site 1055530000498 elongation factor P; Validated; Region: PRK00529 1055530000499 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1055530000500 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 1055530000501 RNA binding site [nucleotide binding]; other site 1055530000502 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 1055530000503 RNA binding site [nucleotide binding]; other site 1055530000504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1055530000505 pseudaminic acid synthase; Region: PseI; TIGR03586 1055530000506 NeuB family; Region: NeuB; pfam03102 1055530000507 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1055530000508 NeuB binding interface [polypeptide binding]; other site 1055530000509 putative substrate binding site [chemical binding]; other site 1055530000510 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1055530000511 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1055530000512 Walker A/P-loop; other site 1055530000513 ATP binding site [chemical binding]; other site 1055530000514 Q-loop/lid; other site 1055530000515 ABC transporter signature motif; other site 1055530000516 Walker B; other site 1055530000517 D-loop; other site 1055530000518 H-loop/switch region; other site 1055530000519 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 1055530000520 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1055530000521 active site 1055530000522 catalytic triad [active] 1055530000523 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1055530000524 Colicin V production protein; Region: Colicin_V; pfam02674 1055530000525 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1055530000526 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 1055530000527 dimer interface [polypeptide binding]; other site 1055530000528 putative anticodon binding site; other site 1055530000529 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 1055530000530 motif 1; other site 1055530000531 active site 1055530000532 motif 2; other site 1055530000533 motif 3; other site 1055530000534 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 1055530000535 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 1055530000536 dimer interface [polypeptide binding]; other site 1055530000537 active site 1055530000538 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1055530000539 folate binding site [chemical binding]; other site 1055530000540 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 1055530000541 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 1055530000542 Sporulation related domain; Region: SPOR; cl10051 1055530000543 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 1055530000544 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1055530000545 PLD-like domain; Region: PLDc_2; pfam13091 1055530000546 putative active site [active] 1055530000547 catalytic site [active] 1055530000548 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1055530000549 PLD-like domain; Region: PLDc_2; pfam13091 1055530000550 putative active site [active] 1055530000551 catalytic site [active] 1055530000552 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 1055530000553 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1055530000554 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 1055530000555 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 1055530000556 L-aspartate oxidase; Provisional; Region: PRK06175 1055530000557 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1055530000558 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 1055530000559 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 1055530000560 Iron-sulfur protein interface; other site 1055530000561 proximal heme binding site [chemical binding]; other site 1055530000562 distal heme binding site [chemical binding]; other site 1055530000563 dimer interface [polypeptide binding]; other site 1055530000564 triosephosphate isomerase; Provisional; Region: PRK14567 1055530000565 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 1055530000566 substrate binding site [chemical binding]; other site 1055530000567 dimer interface [polypeptide binding]; other site 1055530000568 catalytic triad [active] 1055530000569 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 1055530000570 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1055530000571 NAD binding site [chemical binding]; other site 1055530000572 homotetramer interface [polypeptide binding]; other site 1055530000573 homodimer interface [polypeptide binding]; other site 1055530000574 substrate binding site [chemical binding]; other site 1055530000575 active site 1055530000576 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 1055530000577 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1055530000578 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 1055530000579 trimer interface [polypeptide binding]; other site 1055530000580 active site 1055530000581 UDP-GlcNAc binding site [chemical binding]; other site 1055530000582 lipid binding site [chemical binding]; lipid-binding site 1055530000583 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1055530000584 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1055530000585 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1055530000586 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1055530000587 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 1055530000588 active site 1055530000589 multimer interface [polypeptide binding]; other site 1055530000590 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1055530000591 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1055530000592 fatty acid/phospholipid synthesis protein PlsX; Region: plsX; TIGR00182 1055530000593 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 1055530000594 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 1055530000595 dimer interface [polypeptide binding]; other site 1055530000596 active site 1055530000597 CoA binding pocket [chemical binding]; other site 1055530000598 antiporter inner membrane protein; Provisional; Region: PRK11670 1055530000599 Domain of unknown function DUF59; Region: DUF59; pfam01883 1055530000600 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 1055530000601 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1055530000602 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 1055530000603 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1055530000604 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 1055530000605 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1055530000606 heat shock protein 90; Provisional; Region: PRK05218 1055530000607 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 1055530000608 ATP binding site [chemical binding]; other site 1055530000609 Mg2+ binding site [ion binding]; other site 1055530000610 G-X-G motif; other site 1055530000611 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1055530000612 Sel1-like repeats; Region: SEL1; smart00671 1055530000613 Sel1-like repeats; Region: SEL1; smart00671 1055530000614 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 1055530000615 TPR motif; other site 1055530000616 binding surface 1055530000617 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1055530000618 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1055530000619 metal binding site [ion binding]; metal-binding site 1055530000620 dimer interface [polypeptide binding]; other site 1055530000621 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1055530000622 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1055530000623 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1055530000624 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1055530000625 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1055530000626 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 1055530000627 transmembrane helices; other site 1055530000628 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1055530000629 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1055530000630 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 1055530000631 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1055530000632 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1055530000633 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1055530000634 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 1055530000635 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1055530000636 substrate binding site [chemical binding]; other site 1055530000637 Helix-turn-helix domain; Region: HTH_28; pfam13518 1055530000638 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 1055530000639 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1055530000640 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1055530000641 catalytic residue [active] 1055530000642 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 1055530000643 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1055530000644 trimerization site [polypeptide binding]; other site 1055530000645 active site 1055530000646 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1055530000647 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1055530000648 DNA repair protein RadA; Region: sms; TIGR00416 1055530000649 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 1055530000650 Walker A motif/ATP binding site; other site 1055530000651 ATP binding site [chemical binding]; other site 1055530000652 Walker B motif; other site 1055530000653 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1055530000654 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1055530000655 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1055530000656 SelR domain; Region: SelR; pfam01641 1055530000657 Predicted permeases [General function prediction only]; Region: COG0730 1055530000658 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530000659 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1055530000660 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1055530000661 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1055530000662 potential frameshift: common BLAST hit: gi|188527035|ref|YP_001909722.1| outer membrane protein (omp6) 1055530000663 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1055530000664 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1055530000665 Ligand binding site; other site 1055530000666 oligomer interface; other site 1055530000667 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1055530000668 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1055530000669 hypothetical protein; Provisional; Region: PRK04081 1055530000670 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1055530000671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1055530000672 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1055530000673 Sel1-like repeats; Region: SEL1; smart00671 1055530000674 Sel1-like repeats; Region: SEL1; smart00671 1055530000675 Sel1-like repeats; Region: SEL1; smart00671 1055530000676 Sel1-like repeats; Region: SEL1; smart00671 1055530000677 Sel1-like repeats; Region: SEL1; smart00671 1055530000678 Cytochrome c; Region: Cytochrom_C; pfam00034 1055530000679 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 1055530000680 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 1055530000681 domain interfaces; other site 1055530000682 active site 1055530000683 prolyl-tRNA synthetase, family II; Region: proS_fam_II; TIGR00409 1055530000684 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 1055530000685 dimer interface [polypeptide binding]; other site 1055530000686 motif 1; other site 1055530000687 active site 1055530000688 motif 2; other site 1055530000689 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 1055530000690 putative deacylase active site [active] 1055530000691 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 1055530000692 active site 1055530000693 motif 3; other site 1055530000694 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 1055530000695 anticodon binding site; other site 1055530000696 glutamyl-tRNA reductase; Region: hemA; TIGR01035 1055530000697 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1055530000698 tRNA; other site 1055530000699 putative tRNA binding site [nucleotide binding]; other site 1055530000700 putative NADP binding site [chemical binding]; other site 1055530000701 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1055530000702 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1055530000703 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1055530000704 substrate binding pocket [chemical binding]; other site 1055530000705 chain length determination region; other site 1055530000706 substrate-Mg2+ binding site; other site 1055530000707 catalytic residues [active] 1055530000708 aspartate-rich region 1; other site 1055530000709 active site lid residues [active] 1055530000710 aspartate-rich region 2; other site 1055530000711 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 1055530000712 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1055530000713 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1055530000714 dimerization interface [polypeptide binding]; other site 1055530000715 DPS ferroxidase diiron center [ion binding]; other site 1055530000716 ion pore; other site 1055530000717 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1055530000718 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 1055530000719 dimer interface [polypeptide binding]; other site 1055530000720 phosphorylation site [posttranslational modification] 1055530000721 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 1055530000722 ATP binding site [chemical binding]; other site 1055530000723 Mg2+ binding site [ion binding]; other site 1055530000724 G-X-G motif; other site 1055530000725 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1055530000726 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1055530000727 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1055530000728 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 1055530000729 ATP binding site [chemical binding]; other site 1055530000730 Mg++ binding site [ion binding]; other site 1055530000731 motif III; other site 1055530000732 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 1055530000733 nucleotide binding region [chemical binding]; other site 1055530000734 ATP-binding site [chemical binding]; other site 1055530000735 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1055530000736 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1055530000737 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 1055530000738 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1055530000739 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1055530000740 Walker A/P-loop; other site 1055530000741 ATP binding site [chemical binding]; other site 1055530000742 Q-loop/lid; other site 1055530000743 ABC transporter signature motif; other site 1055530000744 Walker B; other site 1055530000745 D-loop; other site 1055530000746 H-loop/switch region; other site 1055530000747 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1055530000748 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1055530000749 Walker A/P-loop; other site 1055530000750 ATP binding site [chemical binding]; other site 1055530000751 Q-loop/lid; other site 1055530000752 ABC transporter signature motif; other site 1055530000753 Walker B; other site 1055530000754 D-loop; other site 1055530000755 H-loop/switch region; other site 1055530000756 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1055530000757 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1055530000758 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 1055530000759 dimer interface [polypeptide binding]; other site 1055530000760 conserved gate region; other site 1055530000761 putative PBP binding loops; other site 1055530000762 ABC-ATPase subunit interface; other site 1055530000763 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530000764 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530000765 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1055530000766 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 1055530000767 GDP-binding site [chemical binding]; other site 1055530000768 ACT binding site; other site 1055530000769 IMP binding site; other site 1055530000770 Flagellar FliJ protein; Region: FliJ; pfam02050 1055530000771 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1055530000772 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 1055530000773 RIP metalloprotease RseP; Region: TIGR00054 1055530000774 active site 1055530000775 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 1055530000776 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 1055530000777 putative substrate binding region [chemical binding]; other site 1055530000778 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 1055530000779 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 1055530000780 generic binding surface II; other site 1055530000781 generic binding surface I; other site 1055530000782 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1055530000783 DNA methylase; Region: N6_N4_Mtase; cl17433 1055530000784 DNA methylase; Region: N6_N4_Mtase; pfam01555 1055530000785 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1055530000786 DNA methylase; Region: N6_N4_Mtase; pfam01555 1055530000787 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1055530000788 Clp amino terminal domain; Region: Clp_N; pfam02861 1055530000789 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 1055530000790 Walker A motif; other site 1055530000791 ATP binding site [chemical binding]; other site 1055530000792 Walker B motif; other site 1055530000793 arginine finger; other site 1055530000794 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 1055530000795 Walker A motif; other site 1055530000796 ATP binding site [chemical binding]; other site 1055530000797 Walker B motif; other site 1055530000798 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1055530000799 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1055530000800 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1055530000801 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 1055530000802 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 1055530000803 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 1055530000804 active site 1055530000805 chlorohydrolase; Provisional; Region: PRK08418 1055530000806 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 1055530000807 active site 1055530000808 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1055530000809 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 1055530000810 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 1055530000811 FeS/SAM binding site; other site 1055530000812 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1055530000813 putative acyl-acceptor binding pocket; other site 1055530000814 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1055530000815 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1055530000816 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1055530000817 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1055530000818 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1055530000819 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 1055530000820 putative active site [active] 1055530000821 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1055530000822 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1055530000823 putative acyl-acceptor binding pocket; other site 1055530000824 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1055530000825 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1055530000826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 1055530000827 TrkA-C domain; Region: TrkA_C; pfam02080 1055530000828 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1055530000829 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1055530000830 active site 1055530000831 dimer interface [polypeptide binding]; other site 1055530000832 metal binding site [ion binding]; metal-binding site 1055530000833 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1055530000834 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1055530000835 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 1055530000836 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1055530000837 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 1055530000838 FeS/SAM binding site; other site 1055530000839 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1055530000840 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 1055530000841 Walker A motif; other site 1055530000842 ATP binding site [chemical binding]; other site 1055530000843 Walker B motif; other site 1055530000844 arginine finger; other site 1055530000845 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 1055530000846 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1055530000847 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1055530000848 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 1055530000849 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1055530000850 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1055530000851 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1055530000852 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1055530000853 active site 1055530000854 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1055530000855 substrate binding site [chemical binding]; other site 1055530000856 catalytic residues [active] 1055530000857 dimer interface [polypeptide binding]; other site 1055530000858 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 1055530000859 Uncharacterized conserved protein [Function unknown]; Region: COG4866 1055530000860 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1055530000861 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1055530000862 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1055530000863 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 1055530000864 substrate-cofactor binding pocket; other site 1055530000865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1055530000866 catalytic residue [active] 1055530000867 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 1055530000868 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 1055530000869 multimer interface [polypeptide binding]; other site 1055530000870 active site 1055530000871 catalytic triad [active] 1055530000872 dimer interface [polypeptide binding]; other site 1055530000873 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 1055530000874 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1055530000875 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1055530000876 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1055530000877 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1055530000878 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1055530000879 peptide binding site [polypeptide binding]; other site 1055530000880 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1055530000881 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 1055530000882 dimer interface [polypeptide binding]; other site 1055530000883 conserved gate region; other site 1055530000884 putative PBP binding loops; other site 1055530000885 ABC-ATPase subunit interface; other site 1055530000886 dipeptide transporter; Provisional; Region: PRK10913 1055530000887 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1055530000888 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 1055530000889 dimer interface [polypeptide binding]; other site 1055530000890 conserved gate region; other site 1055530000891 putative PBP binding loops; other site 1055530000892 ABC-ATPase subunit interface; other site 1055530000893 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1055530000894 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1055530000895 Walker A/P-loop; other site 1055530000896 ATP binding site [chemical binding]; other site 1055530000897 Q-loop/lid; other site 1055530000898 ABC transporter signature motif; other site 1055530000899 Walker B; other site 1055530000900 D-loop; other site 1055530000901 H-loop/switch region; other site 1055530000902 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1055530000903 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1055530000904 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1055530000905 Walker A/P-loop; other site 1055530000906 ATP binding site [chemical binding]; other site 1055530000907 Q-loop/lid; other site 1055530000908 ABC transporter signature motif; other site 1055530000909 Walker B; other site 1055530000910 D-loop; other site 1055530000911 H-loop/switch region; other site 1055530000912 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1055530000913 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1055530000914 GTP1/OBG; Region: GTP1_OBG; pfam01018 1055530000915 Obg GTPase; Region: Obg; cd01898 1055530000916 G1 box; other site 1055530000917 GTP/Mg2+ binding site [chemical binding]; other site 1055530000918 Switch I region; other site 1055530000919 G2 box; other site 1055530000920 G3 box; other site 1055530000921 Switch II region; other site 1055530000922 G4 box; other site 1055530000923 G5 box; other site 1055530000924 Alginate lyase; Region: Alginate_lyase; pfam05426 1055530000925 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1055530000926 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 1055530000927 inhibitor-cofactor binding pocket; inhibition site 1055530000928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1055530000929 catalytic residue [active] 1055530000930 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1055530000931 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1055530000932 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1055530000933 active site 1055530000934 catalytic triad [active] 1055530000935 dimer interface [polypeptide binding]; other site 1055530000936 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 1055530000937 active site 1055530000938 catalytic site [active] 1055530000939 Zn binding site [ion binding]; other site 1055530000940 tetramer interface [polypeptide binding]; other site 1055530000941 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1055530000942 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1055530000943 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1055530000944 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 1055530000945 S-adenosylmethionine binding site [chemical binding]; other site 1055530000946 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1055530000947 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1055530000948 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1055530000949 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 1055530000950 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1055530000951 putative substrate translocation pore; other site 1055530000952 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 1055530000953 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1055530000954 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1055530000955 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1055530000956 arginyl-tRNA synthetase; Region: argS; TIGR00456 1055530000957 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1055530000958 active site 1055530000959 HIGH motif; other site 1055530000960 KMSK motif region; other site 1055530000961 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1055530000962 tRNA binding surface [nucleotide binding]; other site 1055530000963 anticodon binding site; other site 1055530000964 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1055530000965 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1055530000966 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 1055530000967 catalytic site [active] 1055530000968 G-X2-G-X-G-K; other site 1055530000969 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 1055530000970 PLD-like domain; Region: PLDc_2; pfam13091 1055530000971 putative active site [active] 1055530000972 catalytic site [active] 1055530000973 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530000974 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1055530000975 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1055530000976 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1055530000977 ligand binding site; other site 1055530000978 tetramer interface; other site 1055530000979 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 1055530000980 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 1055530000981 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1055530000982 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1055530000983 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1055530000984 NAD synthetase; Provisional; Region: PRK13980 1055530000985 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 1055530000986 homodimer interface [polypeptide binding]; other site 1055530000987 NAD binding pocket [chemical binding]; other site 1055530000988 ATP binding pocket [chemical binding]; other site 1055530000989 Mg binding site [ion binding]; other site 1055530000990 active-site loop [active] 1055530000991 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1055530000992 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1055530000993 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1055530000994 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1055530000995 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 1055530000996 Switch I; other site 1055530000997 Switch II; other site 1055530000998 cell division topological specificity factor MinE; Region: minE; TIGR01215 1055530000999 DNA protecting protein DprA; Region: dprA; TIGR00732 1055530001000 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1055530001001 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1055530001002 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 1055530001003 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1055530001004 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1055530001005 active site 1055530001006 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1055530001007 DHH family; Region: DHH; pfam01368 1055530001008 DHHA1 domain; Region: DHHA1; pfam02272 1055530001009 CTP synthetase; Validated; Region: pyrG; PRK05380 1055530001010 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 1055530001011 Catalytic site [active] 1055530001012 active site 1055530001013 UTP binding site [chemical binding]; other site 1055530001014 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1055530001015 active site 1055530001016 putative oxyanion hole; other site 1055530001017 catalytic triad [active] 1055530001018 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 1055530001019 active site 1055530001020 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 1055530001021 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1055530001022 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1055530001023 flagellar motor switch protein FliG; Region: fliG; TIGR00207 1055530001024 FliG C-terminal domain; Region: FliG_C; pfam01706 1055530001025 flagellar assembly protein H; Validated; Region: fliH; PRK06669 1055530001026 Flagellar assembly protein FliH; Region: FliH; pfam02108 1055530001027 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 1055530001028 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 1055530001029 TPP-binding site; other site 1055530001030 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 1055530001031 PYR/PP interface [polypeptide binding]; other site 1055530001032 dimer interface [polypeptide binding]; other site 1055530001033 TPP binding site [chemical binding]; other site 1055530001034 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1055530001035 GTP-binding protein LepA; Provisional; Region: PRK05433 1055530001036 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1055530001037 G1 box; other site 1055530001038 putative GEF interaction site [polypeptide binding]; other site 1055530001039 GTP/Mg2+ binding site [chemical binding]; other site 1055530001040 Switch I region; other site 1055530001041 G2 box; other site 1055530001042 G3 box; other site 1055530001043 Switch II region; other site 1055530001044 G4 box; other site 1055530001045 G5 box; other site 1055530001046 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 1055530001047 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 1055530001048 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1055530001049 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 1055530001050 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1055530001051 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1055530001052 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1055530001053 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 1055530001054 putative substrate translocation pore; other site 1055530001055 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1055530001056 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1055530001057 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1055530001058 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 1055530001059 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1055530001060 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 1055530001061 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 1055530001062 TPP-binding site [chemical binding]; other site 1055530001063 dimer interface [polypeptide binding]; other site 1055530001064 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 1055530001065 PYR/PP interface [polypeptide binding]; other site 1055530001066 dimer interface [polypeptide binding]; other site 1055530001067 TPP binding site [chemical binding]; other site 1055530001068 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1055530001069 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1055530001070 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 1055530001071 active site 1055530001072 Riboflavin kinase; Region: Flavokinase; smart00904 1055530001073 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 1055530001074 hemolysin TlyA family protein; Region: tly; TIGR00478 1055530001075 RNA binding surface [nucleotide binding]; other site 1055530001076 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 1055530001077 S-adenosylmethionine binding site [chemical binding]; other site 1055530001078 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1055530001079 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1055530001080 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1055530001081 potential frameshift: common BLAST hit: gi|308182535|ref|YP_003926662.1| outer membrane protein HofB 1055530001082 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1055530001083 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1055530001084 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1055530001085 Walker A/P-loop; other site 1055530001086 ATP binding site [chemical binding]; other site 1055530001087 Q-loop/lid; other site 1055530001088 ABC transporter signature motif; other site 1055530001089 Walker B; other site 1055530001090 D-loop; other site 1055530001091 H-loop/switch region; other site 1055530001092 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 1055530001093 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 1055530001094 Restriction endonuclease; Region: Mrr_cat; pfam04471 1055530001095 Predicted ATPases [General function prediction only]; Region: COG1106 1055530001096 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1055530001097 Walker A/P-loop; other site 1055530001098 ATP binding site [chemical binding]; other site 1055530001099 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 1055530001100 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 1055530001101 active site 1055530001102 Zn binding site [ion binding]; other site 1055530001103 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 1055530001104 metal-binding site [ion binding] 1055530001105 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 1055530001106 metal-binding site [ion binding] 1055530001107 fungal transcription factor regulatory middle homology region; Region: fungal_TF_MHR; cd12148 1055530001108 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1055530001109 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1055530001110 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1055530001111 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1055530001112 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1055530001113 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1055530001114 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 1055530001115 Walker A motif; other site 1055530001116 ATP binding site [chemical binding]; other site 1055530001117 Walker B motif; other site 1055530001118 arginine finger; other site 1055530001119 Peptidase family M41; Region: Peptidase_M41; pfam01434 1055530001120 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 1055530001121 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 1055530001122 S-adenosylmethionine binding site [chemical binding]; other site 1055530001123 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1055530001124 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 1055530001125 active site 1055530001126 phosphorylation site [posttranslational modification] 1055530001127 intermolecular recognition site; other site 1055530001128 dimerization interface [polypeptide binding]; other site 1055530001129 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530001130 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1055530001131 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 1055530001132 S-adenosylmethionine binding site [chemical binding]; other site 1055530001133 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1055530001134 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1055530001135 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1055530001136 sec-independent translocase; Provisional; Region: PRK04098 1055530001137 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1055530001138 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 1055530001139 Walker A motif; other site 1055530001140 ATP binding site [chemical binding]; other site 1055530001141 Walker B motif; other site 1055530001142 arginine finger; other site 1055530001143 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1055530001144 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 1055530001145 oligomerization interface [polypeptide binding]; other site 1055530001146 active site 1055530001147 metal binding site [ion binding]; metal-binding site 1055530001148 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530001149 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530001150 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1055530001151 septum formation inhibitor; Reviewed; Region: minC; PRK00556 1055530001152 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1055530001153 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 1055530001154 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1055530001155 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1055530001156 homoserine kinase; Region: thrB; TIGR00191 1055530001157 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1055530001158 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 1055530001159 putative RNA binding cleft [nucleotide binding]; other site 1055530001160 translation initiation factor IF-2; Region: IF-2; TIGR00487 1055530001161 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1055530001162 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1055530001163 G1 box; other site 1055530001164 putative GEF interaction site [polypeptide binding]; other site 1055530001165 GTP/Mg2+ binding site [chemical binding]; other site 1055530001166 Switch I region; other site 1055530001167 G2 box; other site 1055530001168 G3 box; other site 1055530001169 Switch II region; other site 1055530001170 G4 box; other site 1055530001171 G5 box; other site 1055530001172 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 1055530001173 Translation-initiation factor 2; Region: IF-2; pfam11987 1055530001174 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 1055530001175 Ribosome-binding factor A; Region: RBFA; cl00542 1055530001176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 1055530001177 Sm and related proteins; Region: Sm_like; cl00259 1055530001178 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1055530001179 putative oligomer interface [polypeptide binding]; other site 1055530001180 putative RNA binding site [nucleotide binding]; other site 1055530001181 acetyl-CoA synthetase; Provisional; Region: PRK00174 1055530001182 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1055530001183 active site 1055530001184 CoA binding site [chemical binding]; other site 1055530001185 acyl-activating enzyme (AAE) consensus motif; other site 1055530001186 AMP binding site [chemical binding]; other site 1055530001187 acetate binding site [chemical binding]; other site 1055530001188 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1055530001189 putative active site [active] 1055530001190 putative metal binding site [ion binding]; other site 1055530001191 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1055530001192 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1055530001193 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 1055530001194 active site 1055530001195 intermolecular recognition site; other site 1055530001196 dimerization interface [polypeptide binding]; other site 1055530001197 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 1055530001198 DNA binding site [nucleotide binding] 1055530001199 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 1055530001200 DHH family; Region: DHH; pfam01368 1055530001201 flagellar biosynthesis protein FlhA; Region: FlhA; TIGR01398 1055530001202 FHIPEP family; Region: FHIPEP; pfam00771 1055530001203 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 1055530001204 16S/18S rRNA binding site [nucleotide binding]; other site 1055530001205 S13e-L30e interaction site [polypeptide binding]; other site 1055530001206 25S rRNA binding site [nucleotide binding]; other site 1055530001207 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1055530001208 O-Antigen ligase; Region: Wzy_C; pfam04932 1055530001209 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1055530001210 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 1055530001211 trimer interface [polypeptide binding]; other site 1055530001212 active site 1055530001213 dimer interface [polypeptide binding]; other site 1055530001214 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1055530001215 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1055530001216 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 1055530001217 active site 1055530001218 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 1055530001219 catalytic center binding site [active] 1055530001220 ATP binding site [chemical binding]; other site 1055530001221 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1055530001222 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 1055530001223 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1055530001224 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 1055530001225 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 1055530001226 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1055530001227 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1055530001228 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 1055530001229 DNA binding residues [nucleotide binding] 1055530001230 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1055530001231 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1055530001232 flagellar motor switch protein FliY; Validated; Region: PRK08432 1055530001233 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1055530001234 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 1055530001235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 1055530001236 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1055530001237 metal binding site 2 [ion binding]; metal-binding site 1055530001238 putative DNA binding helix; other site 1055530001239 metal binding site 1 [ion binding]; metal-binding site 1055530001240 dimer interface [polypeptide binding]; other site 1055530001241 structural Zn2+ binding site [ion binding]; other site 1055530001242 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 1055530001243 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 1055530001244 Walker A motif; other site 1055530001245 ATP binding site [chemical binding]; other site 1055530001246 Walker B motif; other site 1055530001247 arginine finger; other site 1055530001248 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1055530001249 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 1055530001250 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1055530001251 DNA binding residues [nucleotide binding] 1055530001252 putative dimer interface [polypeptide binding]; other site 1055530001253 chaperone protein DnaJ; Provisional; Region: PRK14299 1055530001254 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 1055530001255 HSP70 interaction site [polypeptide binding]; other site 1055530001256 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1055530001257 substrate binding site [polypeptide binding]; other site 1055530001258 dimer interface [polypeptide binding]; other site 1055530001259 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1055530001260 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 1055530001261 active site 1055530001262 dimerization interface [polypeptide binding]; other site 1055530001263 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1055530001264 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1055530001265 substrate binding site; other site 1055530001266 dimer interface; other site 1055530001267 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 1055530001268 homotrimer interaction site [polypeptide binding]; other site 1055530001269 zinc binding site [ion binding]; other site 1055530001270 CDP-binding sites; other site 1055530001271 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1055530001272 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1055530001273 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 1055530001274 protein binding site [polypeptide binding]; other site 1055530001275 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 1055530001276 protein binding site [polypeptide binding]; other site 1055530001277 S-methylmethionine transporter; Provisional; Region: PRK11387 1055530001278 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 1055530001279 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 1055530001280 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 1055530001281 putative NAD(P) binding site [chemical binding]; other site 1055530001282 active site 1055530001283 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1055530001284 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1055530001285 dimer interface [polypeptide binding]; other site 1055530001286 active site 1055530001287 catalytic residue [active] 1055530001288 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1055530001289 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1055530001290 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1055530001291 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 1055530001292 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 1055530001293 quinone interaction residues [chemical binding]; other site 1055530001294 active site 1055530001295 catalytic residues [active] 1055530001296 FMN binding site [chemical binding]; other site 1055530001297 substrate binding site [chemical binding]; other site 1055530001298 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 1055530001299 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1055530001300 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1055530001301 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1055530001302 putative domain interface [polypeptide binding]; other site 1055530001303 putative active site [active] 1055530001304 catalytic site [active] 1055530001305 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1055530001306 putative active site [active] 1055530001307 putative domain interface [polypeptide binding]; other site 1055530001308 catalytic site [active] 1055530001309 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1055530001310 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1055530001311 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1055530001312 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1055530001313 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1055530001314 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1055530001315 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1055530001316 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 1055530001317 ATP binding site [chemical binding]; other site 1055530001318 putative Mg++ binding site [ion binding]; other site 1055530001319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 1055530001320 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1055530001321 putative metal binding site [ion binding]; other site 1055530001322 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 1055530001323 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1055530001324 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1055530001325 active site 1055530001326 Zn binding site [ion binding]; other site 1055530001327 potential frameshift: common BLAST hit: gi|15645099|ref|NP_207269.1| glutathione-regulated potassium-efflux system protein (kefB) 1055530001328 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530001329 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1055530001330 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1055530001331 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1055530001332 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 1055530001333 dimer interface [polypeptide binding]; other site 1055530001334 conserved gate region; other site 1055530001335 putative PBP binding loops; other site 1055530001336 ABC-ATPase subunit interface; other site 1055530001337 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1055530001338 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1055530001339 Walker A/P-loop; other site 1055530001340 ATP binding site [chemical binding]; other site 1055530001341 Q-loop/lid; other site 1055530001342 ABC transporter signature motif; other site 1055530001343 Walker B; other site 1055530001344 D-loop; other site 1055530001345 H-loop/switch region; other site 1055530001346 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1055530001347 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1055530001348 active site 1055530001349 HIGH motif; other site 1055530001350 nucleotide binding site [chemical binding]; other site 1055530001351 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1055530001352 active site 1055530001353 KMSKS motif; other site 1055530001354 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530001355 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1055530001356 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1055530001357 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 1055530001358 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1055530001359 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 1055530001360 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1055530001361 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1055530001362 G1 box; other site 1055530001363 putative GEF interaction site [polypeptide binding]; other site 1055530001364 GTP/Mg2+ binding site [chemical binding]; other site 1055530001365 Switch I region; other site 1055530001366 G2 box; other site 1055530001367 G3 box; other site 1055530001368 Switch II region; other site 1055530001369 G4 box; other site 1055530001370 G5 box; other site 1055530001371 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 1055530001372 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 1055530001373 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1055530001374 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 1055530001375 GIY-YIG motif/motif A; other site 1055530001376 DNA binding site [nucleotide binding] 1055530001377 active site 1055530001378 catalytic site [active] 1055530001379 metal binding site [ion binding]; metal-binding site 1055530001380 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1055530001381 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 1055530001382 cofactor binding site; other site 1055530001383 DNA binding site [nucleotide binding] 1055530001384 substrate interaction site [chemical binding]; other site 1055530001385 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 1055530001386 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1055530001387 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1055530001388 putative heme binding pocket [chemical binding]; other site 1055530001389 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1055530001390 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1055530001391 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 1055530001392 Cation transport protein; Region: TrkH; cl17365 1055530001393 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1055530001394 TrkA-N domain; Region: TrkA_N; pfam02254 1055530001395 TrkA-C domain; Region: TrkA_C; pfam02080 1055530001396 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1055530001397 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 1055530001398 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 1055530001399 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 1055530001400 Mg++ binding site [ion binding]; other site 1055530001401 putative catalytic motif [active] 1055530001402 putative substrate binding site [chemical binding]; other site 1055530001403 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 1055530001404 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1055530001405 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1055530001406 Protein of unknown function (DUF493); Region: DUF493; pfam04359 1055530001407 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 1055530001408 active site 1055530001409 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1055530001410 Na2 binding site [ion binding]; other site 1055530001411 putative substrate binding site 1 [chemical binding]; other site 1055530001412 Na binding site 1 [ion binding]; other site 1055530001413 putative substrate binding site 2 [chemical binding]; other site 1055530001414 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1055530001415 Na2 binding site [ion binding]; other site 1055530001416 putative substrate binding site 1 [chemical binding]; other site 1055530001417 Na binding site 1 [ion binding]; other site 1055530001418 putative substrate binding site 2 [chemical binding]; other site 1055530001419 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 1055530001420 dimerization interface [polypeptide binding]; other site 1055530001421 substrate binding site [chemical binding]; other site 1055530001422 active site 1055530001423 calcium binding site [ion binding]; other site 1055530001424 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 1055530001425 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 1055530001426 putative DNA binding surface [nucleotide binding]; other site 1055530001427 dimer interface [polypeptide binding]; other site 1055530001428 beta-clamp/translesion DNA polymerase binding surface; other site 1055530001429 beta-clamp/clamp loader binding surface; other site 1055530001430 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1055530001431 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 1055530001432 Mg2+ binding site [ion binding]; other site 1055530001433 G-X-G motif; other site 1055530001434 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 1055530001435 anchoring element; other site 1055530001436 dimer interface [polypeptide binding]; other site 1055530001437 ATP binding site [chemical binding]; other site 1055530001438 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 1055530001439 active site 1055530001440 putative metal-binding site [ion binding]; other site 1055530001441 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1055530001442 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1055530001443 Peptidase family M23; Region: Peptidase_M23; pfam01551 1055530001444 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1055530001445 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 1055530001446 dimer interface [polypeptide binding]; other site 1055530001447 ADP-ribose binding site [chemical binding]; other site 1055530001448 active site 1055530001449 nudix motif; other site 1055530001450 metal binding site [ion binding]; metal-binding site 1055530001451 phosphodiesterase; Provisional; Region: PRK12704 1055530001452 FAD binding domain; Region: FAD_binding_4; pfam01565 1055530001453 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1055530001454 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 1055530001455 dihydrodipicolinate reductase; Region: dapB; TIGR00036 1055530001456 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1055530001457 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1055530001458 glutamine synthetase, type I; Region: GlnA; TIGR00653 1055530001459 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1055530001460 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1055530001461 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1055530001462 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1055530001463 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1055530001464 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 1055530001465 active site 1055530001466 HslU subunit interaction site [polypeptide binding]; other site 1055530001467 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1055530001468 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 1055530001469 Walker A motif; other site 1055530001470 ATP binding site [chemical binding]; other site 1055530001471 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 1055530001472 Walker B motif; other site 1055530001473 arginine finger; other site 1055530001474 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1055530001475 GTPase Era; Reviewed; Region: era; PRK00089 1055530001476 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1055530001477 G1 box; other site 1055530001478 GTP/Mg2+ binding site [chemical binding]; other site 1055530001479 Switch I region; other site 1055530001480 G2 box; other site 1055530001481 Switch II region; other site 1055530001482 G3 box; other site 1055530001483 G4 box; other site 1055530001484 G5 box; other site 1055530001485 KH domain; Region: KH_2; pfam07650 1055530001486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1055530001487 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1055530001488 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1055530001489 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 1055530001490 Walker A motif; other site 1055530001491 ATP binding site [chemical binding]; other site 1055530001492 Walker B motif; other site 1055530001493 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1055530001494 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 1055530001495 ATP binding site [chemical binding]; other site 1055530001496 Walker A motif; other site 1055530001497 hexamer interface [polypeptide binding]; other site 1055530001498 Walker B motif; other site 1055530001499 CagZ; Region: CagZ; pfam09053 1055530001500 DC-EC Repeat; Region: CagY_M; pfam07337 1055530001501 DC-EC Repeat; Region: CagY_M; pfam07337 1055530001502 DC-EC Repeat; Region: CagY_M; pfam07337 1055530001503 DC-EC Repeat; Region: CagY_M; pfam07337 1055530001504 DC-EC Repeat; Region: CagY_M; pfam07337 1055530001505 DC-EC Repeat; Region: CagY_M; pfam07337 1055530001506 DC-EC Repeat; Region: CagY_M; pfam07337 1055530001507 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1055530001508 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1055530001509 Protein of unknown function (DUF3807); Region: DUF3807; pfam12720 1055530001510 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1055530001511 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1055530001512 VirB7 interaction site; other site 1055530001513 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1055530001514 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 1055530001515 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 1055530001516 prolyl-tRNA synthetase; Provisional; Region: PRK08661 1055530001517 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1055530001518 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1055530001519 CagA exotoxin; Region: CagA; pfam03507 1055530001520 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1055530001521 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1055530001522 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1055530001523 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 1055530001524 RNA binding site [nucleotide binding]; other site 1055530001525 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 1055530001526 multimer interface [polypeptide binding]; other site 1055530001527 Walker A motif; other site 1055530001528 ATP binding site [chemical binding]; other site 1055530001529 Walker B motif; other site 1055530001530 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 1055530001531 Predicted methyltransferases [General function prediction only]; Region: COG0313 1055530001532 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1055530001533 putative SAM binding site [chemical binding]; other site 1055530001534 putative homodimer interface [polypeptide binding]; other site 1055530001535 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1055530001536 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1055530001537 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1055530001538 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 1055530001539 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1055530001540 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 1055530001541 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 1055530001542 dimer interface [polypeptide binding]; other site 1055530001543 active site 1055530001544 acyl carrier protein; Provisional; Region: acpP; PRK00982 1055530001545 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1055530001546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1055530001547 NAD(P) binding site [chemical binding]; other site 1055530001548 active site 1055530001549 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1055530001550 Predicted membrane protein [Function unknown]; Region: COG3059 1055530001551 diaminopimelate epimerase; Region: DapF; TIGR00652 1055530001552 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1055530001553 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1055530001554 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1055530001555 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1055530001556 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1055530001557 GTP-binding protein YchF; Reviewed; Region: PRK09601 1055530001558 YchF GTPase; Region: YchF; cd01900 1055530001559 G1 box; other site 1055530001560 GTP/Mg2+ binding site [chemical binding]; other site 1055530001561 Switch I region; other site 1055530001562 G2 box; other site 1055530001563 Switch II region; other site 1055530001564 G3 box; other site 1055530001565 G4 box; other site 1055530001566 G5 box; other site 1055530001567 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 1055530001568 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1055530001569 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 1055530001570 interface (dimer of trimers) [polypeptide binding]; other site 1055530001571 Substrate-binding/catalytic site; other site 1055530001572 Zn-binding sites [ion binding]; other site 1055530001573 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1055530001574 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1055530001575 active site 1055530001576 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1055530001577 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1055530001578 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 1055530001579 Peptidase family M50; Region: Peptidase_M50; pfam02163 1055530001580 active site 1055530001581 putative substrate binding region [chemical binding]; other site 1055530001582 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1055530001583 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 1055530001584 Catalytic site [active] 1055530001585 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 1055530001586 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 1055530001587 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1055530001588 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1055530001589 homodimer interface [polypeptide binding]; other site 1055530001590 NADP binding site [chemical binding]; other site 1055530001591 substrate binding site [chemical binding]; other site 1055530001592 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1055530001593 Sulfatase; Region: Sulfatase; pfam00884 1055530001594 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 1055530001595 BNR repeat-like domain; Region: BNR_2; pfam13088 1055530001596 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 1055530001597 active site 1055530001598 substrate binding pocket [chemical binding]; other site 1055530001599 dimer interface [polypeptide binding]; other site 1055530001600 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1055530001601 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1055530001602 flagellar motor switch protein; Validated; Region: PRK08433 1055530001603 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1055530001604 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1055530001605 minor groove reading motif; other site 1055530001606 helix-hairpin-helix signature motif; other site 1055530001607 substrate binding pocket [chemical binding]; other site 1055530001608 active site 1055530001609 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1055530001610 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1055530001611 Protein of unknown function; Region: DUF3971; pfam13116 1055530001612 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 1055530001613 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1055530001614 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1055530001615 dimerization interface [polypeptide binding]; other site 1055530001616 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 1055530001617 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1055530001618 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 1055530001619 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 1055530001620 dimer interface [polypeptide binding]; other site 1055530001621 PYR/PP interface [polypeptide binding]; other site 1055530001622 TPP binding site [chemical binding]; other site 1055530001623 substrate binding site [chemical binding]; other site 1055530001624 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 1055530001625 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 1055530001626 TPP-binding site [chemical binding]; other site 1055530001627 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 1055530001628 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 1055530001629 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1055530001630 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 1055530001631 ATP binding site [chemical binding]; other site 1055530001632 putative Mg++ binding site [ion binding]; other site 1055530001633 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1055530001634 DNA methylase; Region: N6_N4_Mtase; pfam01555 1055530001635 DNA methylase; Region: N6_N4_Mtase; pfam01555 1055530001636 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1055530001637 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 1055530001638 Transglycosylase; Region: Transgly; pfam00912 1055530001639 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1055530001640 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1055530001641 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 1055530001642 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1055530001643 catalytic residue [active] 1055530001644 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1055530001645 dimer interface [polypeptide binding]; other site 1055530001646 putative CheW interface [polypeptide binding]; other site 1055530001647 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1055530001648 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1055530001649 ABC transporter; Region: ABC_tran; pfam00005 1055530001650 Q-loop/lid; other site 1055530001651 ABC transporter signature motif; other site 1055530001652 Walker B; other site 1055530001653 D-loop; other site 1055530001654 H-loop/switch region; other site 1055530001655 flagellin A; Reviewed; Region: PRK12584 1055530001656 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1055530001657 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1055530001658 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1055530001659 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1055530001660 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 1055530001661 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1055530001662 minor groove reading motif; other site 1055530001663 helix-hairpin-helix signature motif; other site 1055530001664 active site 1055530001665 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 1055530001666 substrate binding site [chemical binding]; other site 1055530001667 active site 1055530001668 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1055530001669 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1055530001670 HlyD family secretion protein; Region: HlyD_3; pfam13437 1055530001671 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1055530001672 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530001673 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1055530001674 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 1055530001675 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1055530001676 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1055530001677 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1055530001678 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 1055530001679 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1055530001680 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1055530001681 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1055530001682 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1055530001683 Walker A/P-loop; other site 1055530001684 ATP binding site [chemical binding]; other site 1055530001685 Q-loop/lid; other site 1055530001686 ABC transporter signature motif; other site 1055530001687 Walker B; other site 1055530001688 D-loop; other site 1055530001689 H-loop/switch region; other site 1055530001690 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1055530001691 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 1055530001692 nucleotide binding pocket [chemical binding]; other site 1055530001693 K-X-D-G motif; other site 1055530001694 catalytic site [active] 1055530001695 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1055530001696 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1055530001697 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 1055530001698 Dimer interface [polypeptide binding]; other site 1055530001699 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 1055530001700 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1055530001701 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 1055530001702 active site 1055530001703 phosphorylation site [posttranslational modification] 1055530001704 intermolecular recognition site; other site 1055530001705 dimerization interface [polypeptide binding]; other site 1055530001706 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1055530001707 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 1055530001708 dimer interface [polypeptide binding]; other site 1055530001709 anticodon binding site; other site 1055530001710 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 1055530001711 homodimer interface [polypeptide binding]; other site 1055530001712 motif 1; other site 1055530001713 active site 1055530001714 motif 2; other site 1055530001715 GAD domain; Region: GAD; pfam02938 1055530001716 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 1055530001717 active site 1055530001718 motif 3; other site 1055530001719 adenylate kinase; Reviewed; Region: adk; PRK00279 1055530001720 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 1055530001721 AMP-binding site [chemical binding]; other site 1055530001722 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1055530001723 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 1055530001724 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 1055530001725 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 1055530001726 dimer interface [polypeptide binding]; other site 1055530001727 substrate binding site [chemical binding]; other site 1055530001728 metal binding sites [ion binding]; metal-binding site 1055530001729 MutS2 family protein; Region: mutS2; TIGR01069 1055530001730 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 1055530001731 Walker A/P-loop; other site 1055530001732 ATP binding site [chemical binding]; other site 1055530001733 Q-loop/lid; other site 1055530001734 ABC transporter signature motif; other site 1055530001735 Walker B; other site 1055530001736 D-loop; other site 1055530001737 H-loop/switch region; other site 1055530001738 Smr domain; Region: Smr; pfam01713 1055530001739 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 1055530001740 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1055530001741 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1055530001742 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1055530001743 hypothetical protein; Provisional; Region: PRK05839 1055530001744 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 1055530001745 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1055530001746 homodimer interface [polypeptide binding]; other site 1055530001747 catalytic residue [active] 1055530001748 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1055530001749 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1055530001750 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1055530001751 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 1055530001752 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 1055530001753 putative trimer interface [polypeptide binding]; other site 1055530001754 putative CoA binding site [chemical binding]; other site 1055530001755 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1055530001756 Sel1-like repeats; Region: SEL1; smart00671 1055530001757 Sel1-like repeats; Region: SEL1; smart00671 1055530001758 Sel1 repeat; Region: Sel1; cl02723 1055530001759 Sel1-like repeats; Region: SEL1; smart00671 1055530001760 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1055530001761 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1055530001762 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1055530001763 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 1055530001764 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1055530001765 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1055530001766 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1055530001767 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 1055530001768 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 1055530001769 nickel binding site [ion binding]; other site 1055530001770 putative substrate-binding site; other site 1055530001771 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530001772 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 1055530001773 Ligand Binding Site [chemical binding]; other site 1055530001774 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1055530001775 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1055530001776 active site 1055530001777 NTP binding site [chemical binding]; other site 1055530001778 metal binding triad [ion binding]; metal-binding site 1055530001779 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1055530001780 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 1055530001781 putative hydrophobic ligand binding site [chemical binding]; other site 1055530001782 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1055530001783 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1055530001784 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 1055530001785 dimer interface [polypeptide binding]; other site 1055530001786 FMN binding site [chemical binding]; other site 1055530001787 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 1055530001788 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1055530001789 active site 1055530001790 HIGH motif; other site 1055530001791 nucleotide binding site [chemical binding]; other site 1055530001792 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1055530001793 active site 1055530001794 KMSKS motif; other site 1055530001795 YGGT family; Region: YGGT; pfam02325 1055530001796 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1055530001797 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 1055530001798 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1055530001799 catalytic residue [active] 1055530001800 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1055530001801 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1055530001802 active site 1055530001803 tetramer interface; other site 1055530001804 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1055530001805 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 1055530001806 hinge; other site 1055530001807 active site 1055530001808 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1055530001809 Aspartase; Region: Aspartase; cd01357 1055530001810 active sites [active] 1055530001811 tetramer interface [polypeptide binding]; other site 1055530001812 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1055530001813 ligand binding site [chemical binding]; other site 1055530001814 active site 1055530001815 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 1055530001816 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1055530001817 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 1055530001818 motif II; other site 1055530001819 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1055530001820 Ferritin-like domain; Region: Ferritin; pfam00210 1055530001821 ferroxidase diiron center [ion binding]; other site 1055530001822 hypothetical protein; Provisional; Region: PRK08444 1055530001823 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 1055530001824 FeS/SAM binding site; other site 1055530001825 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1055530001826 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1055530001827 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1055530001828 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1055530001829 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1055530001830 Surface antigen; Region: Bac_surface_Ag; pfam01103 1055530001831 hypothetical protein; Provisional; Region: PRK08445 1055530001832 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 1055530001833 FeS/SAM binding site; other site 1055530001834 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1055530001835 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1055530001836 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1055530001837 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1055530001838 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1055530001839 GatB domain; Region: GatB_Yqey; smart00845 1055530001840 SurA N-terminal domain; Region: SurA_N; pfam09312 1055530001841 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 1055530001842 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 1055530001843 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1055530001844 RNA/DNA hybrid binding site [nucleotide binding]; other site 1055530001845 active site 1055530001846 ribonuclease III; Reviewed; Region: rnc; PRK00102 1055530001847 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 1055530001848 dimerization interface [polypeptide binding]; other site 1055530001849 active site 1055530001850 metal binding site [ion binding]; metal-binding site 1055530001851 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 1055530001852 dsRNA binding site [nucleotide binding]; other site 1055530001853 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1055530001854 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1055530001855 Tetramer interface [polypeptide binding]; other site 1055530001856 active site 1055530001857 FMN-binding site [chemical binding]; other site 1055530001858 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 1055530001859 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 1055530001860 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 1055530001861 FeS/SAM binding site; other site 1055530001862 HemN C-terminal domain; Region: HemN_C; pfam06969 1055530001863 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1055530001864 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 1055530001865 Cysteine-rich domain; Region: CCG; pfam02754 1055530001866 Cysteine-rich domain; Region: CCG; pfam02754 1055530001867 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1055530001868 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530001869 aspartate aminotransferase; Provisional; Region: PRK05764 1055530001870 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 1055530001871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1055530001872 homodimer interface [polypeptide binding]; other site 1055530001873 catalytic residue [active] 1055530001874 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1055530001875 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 1055530001876 active site 1055530001877 DNA binding site [nucleotide binding] 1055530001878 Int/Topo IB signature motif; other site 1055530001879 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1055530001880 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1055530001881 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 1055530001882 DNA binding site [nucleotide binding] 1055530001883 active site 1055530001884 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1055530001885 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1055530001886 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1055530001887 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1055530001888 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 1055530001889 ATP cone domain; Region: ATP-cone; pfam03477 1055530001890 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1055530001891 active site 1055530001892 dimer interface [polypeptide binding]; other site 1055530001893 catalytic residues [active] 1055530001894 effector binding site; other site 1055530001895 R2 peptide binding site; other site 1055530001896 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 1055530001897 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1055530001898 Substrate binding site; other site 1055530001899 Mg++ binding site; other site 1055530001900 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 1055530001901 active site 1055530001902 substrate binding site [chemical binding]; other site 1055530001903 CoA binding site [chemical binding]; other site 1055530001904 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1055530001905 potential frameshift: common BLAST hit: gi|210134892|ref|YP_002301331.1| iron(III) dicitrate transport protein 1055530001906 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1055530001907 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1055530001908 G1 box; other site 1055530001909 GTP/Mg2+ binding site [chemical binding]; other site 1055530001910 Switch I region; other site 1055530001911 G2 box; other site 1055530001912 G3 box; other site 1055530001913 Switch II region; other site 1055530001914 G4 box; other site 1055530001915 G5 box; other site 1055530001916 Nucleoside recognition; Region: Gate; pfam07670 1055530001917 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1055530001918 Nucleoside recognition; Region: Gate; pfam07670 1055530001919 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1055530001920 active site 1055530001921 catalytic site [active] 1055530001922 substrate binding site [chemical binding]; other site 1055530001923 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1055530001924 putative acyltransferase; Provisional; Region: PRK05790 1055530001925 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 1055530001926 dimer interface [polypeptide binding]; other site 1055530001927 active site 1055530001928 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1055530001929 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1055530001930 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 1055530001931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 1055530001932 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1055530001933 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1055530001934 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1055530001935 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1055530001936 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1055530001937 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 1055530001938 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 1055530001939 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1055530001940 DNA gyrase subunit A; Validated; Region: PRK05560 1055530001941 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 1055530001942 CAP-like domain; other site 1055530001943 active site 1055530001944 primary dimer interface [polypeptide binding]; other site 1055530001945 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1055530001946 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1055530001947 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1055530001948 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1055530001949 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1055530001950 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1055530001951 Response regulator receiver domain; Region: Response_reg; pfam00072 1055530001952 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 1055530001953 active site 1055530001954 phosphorylation site [posttranslational modification] 1055530001955 intermolecular recognition site; other site 1055530001956 dimerization interface [polypeptide binding]; other site 1055530001957 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 1055530001958 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1055530001959 Walker A motif; other site 1055530001960 ATP binding site [chemical binding]; other site 1055530001961 Walker B motif; other site 1055530001962 arginine finger; other site 1055530001963 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1055530001964 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1055530001965 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1055530001966 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1055530001967 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530001968 MraW methylase family; Region: Methyltransf_5; cl17771 1055530001969 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1055530001970 Uncharacterized conserved protein [Function unknown]; Region: COG1912 1055530001971 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530001972 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1055530001973 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1055530001974 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1055530001975 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1055530001976 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1055530001977 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1055530001978 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1055530001979 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1055530001980 Walker A/P-loop; other site 1055530001981 ATP binding site [chemical binding]; other site 1055530001982 Q-loop/lid; other site 1055530001983 ABC transporter signature motif; other site 1055530001984 Walker B; other site 1055530001985 D-loop; other site 1055530001986 H-loop/switch region; other site 1055530001987 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1055530001988 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 1055530001989 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 1055530001990 Walker A motif; other site 1055530001991 ATP binding site [chemical binding]; other site 1055530001992 Walker B motif; other site 1055530001993 arginine finger; other site 1055530001994 Lysine efflux permease [General function prediction only]; Region: COG1279 1055530001995 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1055530001996 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1055530001997 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530001998 anaerobic c4-dicarboxylate membrane transporter family protein; Region: Dcu; TIGR00770 1055530001999 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1055530002000 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1055530002001 active site 1055530002002 homodimer interface [polypeptide binding]; other site 1055530002003 homotetramer interface [polypeptide binding]; other site 1055530002004 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530002005 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1055530002006 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 1055530002007 FMN binding site [chemical binding]; other site 1055530002008 active site 1055530002009 catalytic residues [active] 1055530002010 substrate binding site [chemical binding]; other site 1055530002011 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1055530002012 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 1055530002013 Ligand Binding Site [chemical binding]; other site 1055530002014 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1055530002015 G1 box; other site 1055530002016 GTP/Mg2+ binding site [chemical binding]; other site 1055530002017 G2 box; other site 1055530002018 Switch I region; other site 1055530002019 G3 box; other site 1055530002020 Switch II region; other site 1055530002021 G4 box; other site 1055530002022 V-type ATP synthase subunit I; Validated; Region: PRK05771 1055530002023 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1055530002024 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1055530002025 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 1055530002026 FeS/SAM binding site; other site 1055530002027 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1055530002028 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1055530002029 active site 1055530002030 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1055530002031 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1055530002032 catalytic residue [active] 1055530002033 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1055530002034 tetramer interfaces [polypeptide binding]; other site 1055530002035 binuclear metal-binding site [ion binding]; other site 1055530002036 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1055530002037 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1055530002038 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1055530002039 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1055530002040 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1055530002041 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1055530002042 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1055530002043 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 1055530002044 nucleotide binding site/active site [active] 1055530002045 HIT family signature motif; other site 1055530002046 catalytic residue [active] 1055530002047 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1055530002048 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1055530002049 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1055530002050 active site 1055530002051 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1055530002052 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 1055530002053 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1055530002054 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1055530002055 active site 1055530002056 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 1055530002057 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 1055530002058 Interdomain contacts; other site 1055530002059 Cytokine receptor motif; other site 1055530002060 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 1055530002061 Interdomain contacts; other site 1055530002062 Cytokine receptor motif; other site 1055530002063 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 1055530002064 Interdomain contacts; other site 1055530002065 Cytokine receptor motif; other site 1055530002066 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 1055530002067 S-adenosylmethionine binding site [chemical binding]; other site 1055530002068 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1055530002069 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1055530002070 Walker A/P-loop; other site 1055530002071 ATP binding site [chemical binding]; other site 1055530002072 Q-loop/lid; other site 1055530002073 ABC transporter signature motif; other site 1055530002074 Walker B; other site 1055530002075 D-loop; other site 1055530002076 H-loop/switch region; other site 1055530002077 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1055530002078 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1055530002079 Peptidase family M23; Region: Peptidase_M23; pfam01551 1055530002080 flagellar protein FlaG; Provisional; Region: PRK08452 1055530002081 flagellar capping protein; Validated; Region: fliD; PRK08453 1055530002082 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1055530002083 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1055530002084 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 1055530002085 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1055530002086 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 1055530002087 putative ATP binding site [chemical binding]; other site 1055530002088 putative substrate interface [chemical binding]; other site 1055530002089 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1055530002090 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1055530002091 putative active site; other site 1055530002092 catalytic triad [active] 1055530002093 putative dimer interface [polypeptide binding]; other site 1055530002094 Predicted permease [General function prediction only]; Region: COG2056 1055530002095 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1055530002096 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1055530002097 putative efflux protein, MATE family; Region: matE; TIGR00797 1055530002098 phosphodiesterase; Provisional; Region: PRK12704 1055530002099 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 1055530002100 nucleic acid binding region [nucleotide binding]; other site 1055530002101 G-X-X-G motif; other site 1055530002102 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1055530002103 Zn2+ binding site [ion binding]; other site 1055530002104 Mg2+ binding site [ion binding]; other site 1055530002105 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1055530002106 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 1055530002107 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 1055530002108 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 1055530002109 Flagellin N-methylase; Region: FliB; cl00497 1055530002110 Mu-like prophage protein [General function prediction only]; Region: COG3941 1055530002111 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1055530002112 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 1055530002113 FeS/SAM binding site; other site 1055530002114 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1055530002115 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1055530002116 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1055530002117 GTP binding site; other site 1055530002118 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 1055530002119 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1055530002120 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1055530002121 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 1055530002122 active site 1055530002123 metal binding site [ion binding]; metal-binding site 1055530002124 Nitronate monooxygenase; Region: NMO; pfam03060 1055530002125 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 1055530002126 FMN binding site [chemical binding]; other site 1055530002127 substrate binding site [chemical binding]; other site 1055530002128 putative catalytic residue [active] 1055530002129 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1055530002130 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1055530002131 active site 1055530002132 HIGH motif; other site 1055530002133 dimer interface [polypeptide binding]; other site 1055530002134 KMSKS motif; other site 1055530002135 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 1055530002136 RNA binding surface [nucleotide binding]; other site 1055530002137 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 1055530002138 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1055530002139 Zn2+ binding site [ion binding]; other site 1055530002140 Mg2+ binding site [ion binding]; other site 1055530002141 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1055530002142 synthetase active site [active] 1055530002143 NTP binding site [chemical binding]; other site 1055530002144 metal binding site [ion binding]; metal-binding site 1055530002145 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 1055530002146 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 1055530002147 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 1055530002148 putative nucleotide binding site [chemical binding]; other site 1055530002149 uridine monophosphate binding site [chemical binding]; other site 1055530002150 homohexameric interface [polypeptide binding]; other site 1055530002151 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 1055530002152 aconitate hydratase 2; Region: acnB; TIGR00117 1055530002153 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 1055530002154 substrate binding site [chemical binding]; other site 1055530002155 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1055530002156 substrate binding site [chemical binding]; other site 1055530002157 ligand binding site [chemical binding]; other site 1055530002158 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1055530002159 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1055530002160 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1055530002161 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1055530002162 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1055530002163 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1055530002164 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 1055530002165 nucleotide binding region [chemical binding]; other site 1055530002166 ATP-binding site [chemical binding]; other site 1055530002167 SEC-C motif; Region: SEC-C; pfam02810 1055530002168 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1055530002169 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1055530002170 FtsX-like permease family; Region: FtsX; pfam02687 1055530002171 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1055530002172 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1055530002173 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1055530002174 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1055530002175 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 1055530002176 metal-binding site [ion binding] 1055530002177 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1055530002178 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1055530002179 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1055530002180 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1055530002181 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1055530002182 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1055530002183 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1055530002184 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 1055530002185 active site 1055530002186 catalytic residues [active] 1055530002187 metal binding site [ion binding]; metal-binding site 1055530002188 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1055530002189 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1055530002190 oligomer interface [polypeptide binding]; other site 1055530002191 active site residues [active] 1055530002192 trigger factor; Provisional; Region: tig; PRK01490 1055530002193 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1055530002194 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1055530002195 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530002196 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 1055530002197 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 1055530002198 trimer interface [polypeptide binding]; other site 1055530002199 dimer interface [polypeptide binding]; other site 1055530002200 putative active site [active] 1055530002201 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 1055530002202 MPT binding site; other site 1055530002203 trimer interface [polypeptide binding]; other site 1055530002204 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 1055530002205 MoaE homodimer interface [polypeptide binding]; other site 1055530002206 MoaD interaction [polypeptide binding]; other site 1055530002207 active site residues [active] 1055530002208 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1055530002209 MoaE interaction surface [polypeptide binding]; other site 1055530002210 MoeB interaction surface [polypeptide binding]; other site 1055530002211 thiocarboxylated glycine; other site 1055530002212 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 1055530002213 dimerization interface [polypeptide binding]; other site 1055530002214 active site 1055530002215 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 1055530002216 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1055530002217 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; cl00522 1055530002218 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 1055530002219 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1055530002220 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1055530002221 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 1055530002222 N-terminal plug; other site 1055530002223 ligand-binding site [chemical binding]; other site 1055530002224 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 1055530002225 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 1055530002226 RNA methyltransferase, RsmD family; Region: TIGR00095 1055530002227 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1055530002228 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1055530002229 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1055530002230 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 1055530002231 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 1055530002232 ATP binding site [chemical binding]; other site 1055530002233 substrate interface [chemical binding]; other site 1055530002234 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1055530002235 flagellar motor protein MotA; Validated; Region: PRK08456 1055530002236 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 1055530002237 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1055530002238 ligand binding site [chemical binding]; other site 1055530002239 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 1055530002240 Recombination endonuclease VII; Region: Endonuclease_7; pfam02945 1055530002241 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1055530002242 DNA methylase; Region: N6_N4_Mtase; pfam01555 1055530002243 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 1055530002244 dimer interface [polypeptide binding]; other site 1055530002245 conserved gate region; other site 1055530002246 ABC-ATPase subunit interface; other site 1055530002247 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1055530002248 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1055530002249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1055530002250 Walker A/P-loop; other site 1055530002251 ATP binding site [chemical binding]; other site 1055530002252 Q-loop/lid; other site 1055530002253 ABC transporter signature motif; other site 1055530002254 Walker B; other site 1055530002255 D-loop; other site 1055530002256 H-loop/switch region; other site 1055530002257 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 1055530002258 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1055530002259 GIY-YIG motif/motif A; other site 1055530002260 active site 1055530002261 catalytic site [active] 1055530002262 putative DNA binding site [nucleotide binding]; other site 1055530002263 metal binding site [ion binding]; metal-binding site 1055530002264 UvrB/uvrC motif; Region: UVR; pfam02151 1055530002265 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1055530002266 homoserine dehydrogenase; Provisional; Region: PRK06349 1055530002267 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1055530002268 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 1055530002269 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 1055530002270 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 1055530002271 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1055530002272 catalytic residues [active] 1055530002273 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1055530002274 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1055530002275 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1055530002276 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 1055530002277 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 1055530002278 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1055530002279 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1055530002280 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1055530002281 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1055530002282 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 1055530002283 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 1055530002284 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 1055530002285 active site 1055530002286 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 1055530002287 indole acetimide hydrolase; Validated; Region: PRK07488 1055530002288 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1055530002289 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 1055530002290 CoA-binding site [chemical binding]; other site 1055530002291 spermidine synthase; Provisional; Region: speE; PRK00536 1055530002292 spermidine synthase; Provisional; Region: PRK00811 1055530002293 GTP-binding protein Der; Reviewed; Region: PRK00093 1055530002294 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1055530002295 G1 box; other site 1055530002296 GTP/Mg2+ binding site [chemical binding]; other site 1055530002297 Switch I region; other site 1055530002298 G2 box; other site 1055530002299 Switch II region; other site 1055530002300 G3 box; other site 1055530002301 G4 box; other site 1055530002302 G5 box; other site 1055530002303 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1055530002304 G1 box; other site 1055530002305 GTP/Mg2+ binding site [chemical binding]; other site 1055530002306 Switch I region; other site 1055530002307 G2 box; other site 1055530002308 G3 box; other site 1055530002309 Switch II region; other site 1055530002310 G4 box; other site 1055530002311 G5 box; other site 1055530002312 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 1055530002313 IHF dimer interface [polypeptide binding]; other site 1055530002314 IHF - DNA interface [nucleotide binding]; other site 1055530002315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 1055530002316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 1055530002317 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1055530002318 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1055530002319 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1055530002320 NAD(P) binding site [chemical binding]; other site 1055530002321 homodimer interface [polypeptide binding]; other site 1055530002322 substrate binding site [chemical binding]; other site 1055530002323 active site 1055530002324 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 1055530002325 Flavoprotein; Region: Flavoprotein; pfam02441 1055530002326 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1055530002327 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 1055530002328 thiamine phosphate binding site [chemical binding]; other site 1055530002329 active site 1055530002330 pyrophosphate binding site [ion binding]; other site 1055530002331 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 1055530002332 dimer interface [polypeptide binding]; other site 1055530002333 substrate binding site [chemical binding]; other site 1055530002334 ATP binding site [chemical binding]; other site 1055530002335 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 1055530002336 substrate binding site [chemical binding]; other site 1055530002337 multimerization interface [polypeptide binding]; other site 1055530002338 ATP binding site [chemical binding]; other site 1055530002339 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1055530002340 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1055530002341 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 1055530002342 ATP binding site [chemical binding]; other site 1055530002343 putative Mg++ binding site [ion binding]; other site 1055530002344 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1055530002345 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1055530002346 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 1055530002347 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1055530002348 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 1055530002349 S-adenosylmethionine binding site [chemical binding]; other site 1055530002350 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 1055530002351 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1055530002352 cofactor binding site; other site 1055530002353 DNA binding site [nucleotide binding] 1055530002354 substrate interaction site [chemical binding]; other site 1055530002355 HaeIII restriction endonuclease; Region: RE_HaeIII; pfam09556 1055530002356 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 1055530002357 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1055530002358 active site 1055530002359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2958 1055530002360 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1055530002361 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1055530002362 Walker A/P-loop; other site 1055530002363 ATP binding site [chemical binding]; other site 1055530002364 Q-loop/lid; other site 1055530002365 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1055530002366 ABC transporter; Region: ABC_tran_2; pfam12848 1055530002367 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1055530002368 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1055530002369 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 1055530002370 active site 1055530002371 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 1055530002372 dimer interface [polypeptide binding]; other site 1055530002373 active site 1055530002374 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 1055530002375 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 1055530002376 putative ribose interaction site [chemical binding]; other site 1055530002377 putative ADP binding site [chemical binding]; other site 1055530002378 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1055530002379 active site 1055530002380 nucleotide binding site [chemical binding]; other site 1055530002381 HIGH motif; other site 1055530002382 KMSKS motif; other site 1055530002383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1055530002384 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1055530002385 NAD(P) binding site [chemical binding]; other site 1055530002386 active site 1055530002387 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1055530002388 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 1055530002389 active site 1055530002390 motif I; other site 1055530002391 motif II; other site 1055530002392 Uncharacterized conserved protein [Function unknown]; Region: COG2836 1055530002393 pantothenate kinase; Reviewed; Region: PRK13333 1055530002394 PQQ-like domain; Region: PQQ_2; pfam13360 1055530002395 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1055530002396 trimer interface [polypeptide binding]; other site 1055530002397 active site 1055530002398 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1055530002399 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1055530002400 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1055530002401 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1055530002402 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 1055530002403 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 1055530002404 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 1055530002405 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 1055530002406 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1055530002407 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1055530002408 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1055530002409 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1055530002410 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 1055530002411 PhnA protein; Region: PhnA; pfam03831 1055530002412 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1055530002413 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1055530002414 tetramer interface [polypeptide binding]; other site 1055530002415 heme binding pocket [chemical binding]; other site 1055530002416 NADPH binding site [chemical binding]; other site 1055530002417 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1055530002418 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 1055530002419 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1055530002420 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 1055530002421 active site 1055530002422 putative DNA-binding cleft [nucleotide binding]; other site 1055530002423 dimer interface [polypeptide binding]; other site 1055530002424 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1055530002425 LabA_like proteins; Region: LabA_like; cd06167 1055530002426 putative metal binding site [ion binding]; other site 1055530002427 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 1055530002428 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 1055530002429 RuvA N terminal domain; Region: RuvA_N; pfam01330 1055530002430 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1055530002431 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1055530002432 MviN-like protein; Region: MVIN; pfam03023 1055530002433 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1055530002434 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1055530002435 active site 1055530002436 HIGH motif; other site 1055530002437 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1055530002438 KMSKS motif; other site 1055530002439 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1055530002440 tRNA binding surface [nucleotide binding]; other site 1055530002441 anticodon binding site; other site 1055530002442 Vacuolating cyotoxin; Region: VacA; pfam02691 1055530002443 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1055530002444 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1055530002445 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 1055530002446 Ligand binding site; other site 1055530002447 metal-binding site 1055530002448 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1055530002449 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1055530002450 Walker A/P-loop; other site 1055530002451 ATP binding site [chemical binding]; other site 1055530002452 Q-loop/lid; other site 1055530002453 ABC transporter signature motif; other site 1055530002454 Walker B; other site 1055530002455 D-loop; other site 1055530002456 H-loop/switch region; other site 1055530002457 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 1055530002458 ABC-ATPase subunit interface; other site 1055530002459 dimer interface [polypeptide binding]; other site 1055530002460 putative PBP binding regions; other site 1055530002461 short chain dehydrogenase; Validated; Region: PRK06182 1055530002462 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1055530002463 NADP binding site [chemical binding]; other site 1055530002464 active site 1055530002465 steroid binding site; other site 1055530002466 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 1055530002467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1055530002468 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 1055530002469 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530002470 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1055530002471 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1055530002472 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 1055530002473 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 1055530002474 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1055530002475 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1055530002476 potential frameshift: common BLAST hit: gi|15611907|ref|NP_223558.1| acetate kinase 1055530002477 potential frameshift: common BLAST hit: gi|48734589|ref|NP_207696.2| acetate kinase 1055530002478 potential frameshift: common BLAST hit: gi|254779508|ref|YP_003057614.1| phosphotransacetylase 1055530002479 potential frameshift: common BLAST hit: gi|188527730|ref|YP_001910417.1| phosphotransacetylase 1055530002480 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1055530002481 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 1055530002482 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1055530002483 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1055530002484 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 1055530002485 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1055530002486 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1055530002487 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1055530002488 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 1055530002489 S-adenosylmethionine binding site [chemical binding]; other site 1055530002490 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1055530002491 Part of AAA domain; Region: AAA_19; pfam13245 1055530002492 Family description; Region: UvrD_C_2; pfam13538 1055530002493 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530002494 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530002495 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1055530002496 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1055530002497 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 1055530002498 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 1055530002499 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1055530002500 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1055530002501 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1055530002502 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1055530002503 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1055530002504 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1055530002505 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1055530002506 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 1055530002507 IMP binding site; other site 1055530002508 dimer interface [polypeptide binding]; other site 1055530002509 interdomain contacts; other site 1055530002510 partial ornithine binding site; other site 1055530002511 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1055530002512 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1055530002513 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1055530002514 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1055530002515 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1055530002516 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1055530002517 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1055530002518 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1055530002519 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 1055530002520 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1055530002521 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1055530002522 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530002523 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 1055530002524 active site 1 [active] 1055530002525 dimer interface [polypeptide binding]; other site 1055530002526 hexamer interface [polypeptide binding]; other site 1055530002527 active site 2 [active] 1055530002528 recombination protein RecR; Region: recR; TIGR00615 1055530002529 RecR protein; Region: RecR; pfam02132 1055530002530 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 1055530002531 putative active site [active] 1055530002532 putative metal-binding site [ion binding]; other site 1055530002533 tetramer interface [polypeptide binding]; other site 1055530002534 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 1055530002535 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1055530002536 Permutation of conserved domain; other site 1055530002537 active site 1055530002538 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1055530002539 heat shock protein HtpX; Provisional; Region: PRK02870 1055530002540 GTP cyclohydrolase I; Region: folE; TIGR00063 1055530002541 GTP cyclohydrolase I; Provisional; Region: PLN03044 1055530002542 active site 1055530002543 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1055530002544 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1055530002545 substrate binding pocket [chemical binding]; other site 1055530002546 chain length determination region; other site 1055530002547 substrate-Mg2+ binding site; other site 1055530002548 catalytic residues [active] 1055530002549 aspartate-rich region 1; other site 1055530002550 active site lid residues [active] 1055530002551 aspartate-rich region 2; other site 1055530002552 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1055530002553 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1055530002554 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1055530002555 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1055530002556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1055530002557 Coenzyme A binding pocket [chemical binding]; other site 1055530002558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1055530002559 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530002560 metabolite-proton symporter; Region: 2A0106; TIGR00883 1055530002561 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1055530002562 Protein of unknown function DUF262; Region: DUF262; pfam03235 1055530002563 Protein of unknown function DUF262; Region: DUF262; pfam03235 1055530002564 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1055530002565 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1055530002566 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 1055530002567 dimer interface [polypeptide binding]; other site 1055530002568 conserved gate region; other site 1055530002569 putative PBP binding loops; other site 1055530002570 ABC-ATPase subunit interface; other site 1055530002571 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1055530002572 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 1055530002573 substrate binding pocket [chemical binding]; other site 1055530002574 membrane-bound complex binding site; other site 1055530002575 hinge residues; other site 1055530002576 alanine racemase; Region: alr; TIGR00492 1055530002577 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1055530002578 active site 1055530002579 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1055530002580 dimer interface [polypeptide binding]; other site 1055530002581 substrate binding site [chemical binding]; other site 1055530002582 catalytic residues [active] 1055530002583 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1055530002584 amino acid carrier protein; Region: agcS; TIGR00835 1055530002585 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1055530002586 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 1055530002587 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 1055530002588 homotrimer interaction site [polypeptide binding]; other site 1055530002589 putative active site [active] 1055530002590 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1055530002591 Uncharacterized conserved protein [Function unknown]; Region: COG1576 1055530002592 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 1055530002593 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1055530002594 putative recombination protein RecO; Provisional; Region: PRK13908 1055530002595 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 1055530002596 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 1055530002597 FMN binding site [chemical binding]; other site 1055530002598 dimer interface [polypeptide binding]; other site 1055530002599 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 1055530002600 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1055530002601 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1055530002602 active site 1055530002603 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1055530002604 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1055530002605 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 1055530002606 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1055530002607 Putative zinc ribbon domain; Region: DUF164; pfam02591 1055530002608 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 1055530002609 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1055530002610 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 1055530002611 dimer interface [polypeptide binding]; other site 1055530002612 motif 1; other site 1055530002613 active site 1055530002614 motif 2; other site 1055530002615 motif 3; other site 1055530002616 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1055530002617 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1055530002618 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1055530002619 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 1055530002620 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1055530002621 G1 box; other site 1055530002622 GTP/Mg2+ binding site [chemical binding]; other site 1055530002623 G2 box; other site 1055530002624 Switch I region; other site 1055530002625 G3 box; other site 1055530002626 Switch II region; other site 1055530002627 G4 box; other site 1055530002628 G5 box; other site 1055530002629 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1055530002630 G1 box; other site 1055530002631 GTP/Mg2+ binding site [chemical binding]; other site 1055530002632 G2 box; other site 1055530002633 Switch I region; other site 1055530002634 G3 box; other site 1055530002635 Switch II region; other site 1055530002636 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 1055530002637 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1055530002638 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1055530002639 Outer membrane efflux protein; Region: OEP; pfam02321 1055530002640 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 1055530002641 phosphoglyceromutase; Provisional; Region: PRK05434 1055530002642 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1055530002643 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 1055530002644 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1055530002645 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 1055530002646 inhibitor-cofactor binding pocket; inhibition site 1055530002647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1055530002648 catalytic residue [active] 1055530002649 SurA N-terminal domain; Region: SurA_N_3; cl07813 1055530002650 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1055530002651 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1055530002652 cell division protein FtsA; Region: ftsA; TIGR01174 1055530002653 Cell division protein FtsA; Region: FtsA; smart00842 1055530002654 Cell division protein FtsA; Region: FtsA; pfam14450 1055530002655 cell division protein FtsZ; Validated; Region: PRK09330 1055530002656 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 1055530002657 nucleotide binding site [chemical binding]; other site 1055530002658 SulA interaction site; other site 1055530002659 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1055530002660 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 1055530002661 active site 1055530002662 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 1055530002663 DHH family; Region: DHH; pfam01368 1055530002664 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 1055530002665 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1055530002666 active site 1055530002667 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1055530002668 catalytic residues [active] 1055530002669 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1055530002670 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1055530002671 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 1055530002672 putative ADP-binding pocket [chemical binding]; other site 1055530002673 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 1055530002674 active site 2 [active] 1055530002675 active site 1 [active] 1055530002676 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1055530002677 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 1055530002678 S-adenosylmethionine binding site [chemical binding]; other site 1055530002679 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1055530002680 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1055530002681 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1055530002682 active site 1055530002683 HIGH motif; other site 1055530002684 KMSKS motif; other site 1055530002685 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1055530002686 anticodon binding site; other site 1055530002687 tRNA binding surface [nucleotide binding]; other site 1055530002688 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 1055530002689 dimer interface [polypeptide binding]; other site 1055530002690 putative tRNA-binding site [nucleotide binding]; other site 1055530002691 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1055530002692 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 1055530002693 S-adenosylmethionine binding site [chemical binding]; other site 1055530002694 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1055530002695 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1055530002696 potential protein location (hypothetical protein HPSNT_05160 [Helicobacter pylori Santal49]) that overlaps RNA (tRNA-P) 1055530002697 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 1055530002698 GMP synthase; Reviewed; Region: guaA; PRK00074 1055530002699 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1055530002700 AMP/PPi binding site [chemical binding]; other site 1055530002701 candidate oxyanion hole; other site 1055530002702 catalytic triad [active] 1055530002703 potential glutamine specificity residues [chemical binding]; other site 1055530002704 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 1055530002705 ATP Binding subdomain [chemical binding]; other site 1055530002706 Ligand Binding sites [chemical binding]; other site 1055530002707 Dimerization subdomain; other site 1055530002708 potential frameshift: common BLAST hit: gi|298735955|ref|YP_003728480.1| trimethylamine-N-oxide reductase 1055530002709 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 1055530002710 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1055530002711 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 1055530002712 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1055530002713 catalytic residue [active] 1055530002714 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 1055530002715 nucleotide binding site/active site [active] 1055530002716 HIT family signature motif; other site 1055530002717 catalytic residue [active] 1055530002718 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1055530002719 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1055530002720 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 1055530002721 dimer interface [polypeptide binding]; other site 1055530002722 motif 1; other site 1055530002723 active site 1055530002724 motif 2; other site 1055530002725 motif 3; other site 1055530002726 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1055530002727 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 1055530002728 putative tRNA-binding site [nucleotide binding]; other site 1055530002729 tRNA synthetase B5 domain; Region: B5; pfam03484 1055530002730 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 1055530002731 dimer interface [polypeptide binding]; other site 1055530002732 motif 1; other site 1055530002733 motif 3; other site 1055530002734 motif 2; other site 1055530002735 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1055530002736 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 1055530002737 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1055530002738 hinge; other site 1055530002739 active site 1055530002740 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1055530002741 LytB protein; Region: LYTB; pfam02401 1055530002742 ribosomal protein S1; Region: rpsA; TIGR00717 1055530002743 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 1055530002744 RNA binding site [nucleotide binding]; other site 1055530002745 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1055530002746 RNA binding site [nucleotide binding]; other site 1055530002747 S1 RNA binding domain; Region: S1; pfam00575 1055530002748 RNA binding site [nucleotide binding]; other site 1055530002749 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 1055530002750 RNA binding site [nucleotide binding]; other site 1055530002751 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 1055530002752 RNA binding site [nucleotide binding]; other site 1055530002753 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 1055530002754 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1055530002755 ligand binding site [chemical binding]; other site 1055530002756 NAD binding site [chemical binding]; other site 1055530002757 dimerization interface [polypeptide binding]; other site 1055530002758 catalytic site [active] 1055530002759 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1055530002760 putative L-serine binding site [chemical binding]; other site 1055530002761 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 1055530002762 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1055530002763 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1055530002764 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1055530002765 catalytic residue [active] 1055530002766 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1055530002767 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1055530002768 putative active site [active] 1055530002769 putative metal binding site [ion binding]; other site 1055530002770 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1055530002771 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1055530002772 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 1055530002773 active site 1055530002774 phosphorylation site [posttranslational modification] 1055530002775 intermolecular recognition site; other site 1055530002776 dimerization interface [polypeptide binding]; other site 1055530002777 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 1055530002778 putative binding surface; other site 1055530002779 active site 1055530002780 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1055530002781 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1055530002782 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 1055530002783 ATP binding site [chemical binding]; other site 1055530002784 Mg2+ binding site [ion binding]; other site 1055530002785 G-X-G motif; other site 1055530002786 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 1055530002787 Response regulator receiver domain; Region: Response_reg; pfam00072 1055530002788 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 1055530002789 active site 1055530002790 phosphorylation site [posttranslational modification] 1055530002791 intermolecular recognition site; other site 1055530002792 dimerization interface [polypeptide binding]; other site 1055530002793 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 1055530002794 putative CheA interaction surface; other site 1055530002795 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 1055530002796 dimer interface [polypeptide binding]; other site 1055530002797 catalytic triad [active] 1055530002798 peroxidatic and resolving cysteines [active] 1055530002799 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1055530002800 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1055530002801 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1055530002802 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 1055530002803 S-adenosylmethionine binding site [chemical binding]; other site 1055530002804 primosome assembly protein PriA; Validated; Region: PRK05580 1055530002805 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 1055530002806 ATP binding site [chemical binding]; other site 1055530002807 putative Mg++ binding site [ion binding]; other site 1055530002808 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1055530002809 Sporulation related domain; Region: SPOR; pfam05036 1055530002810 Peptidase family M48; Region: Peptidase_M48; pfam01435 1055530002811 HemK family putative methylases; Region: hemK_fam; TIGR00536 1055530002812 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 1055530002813 glutamate dehydrogenase; Provisional; Region: PRK09414 1055530002814 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1055530002815 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1055530002816 NAD(P) binding site [chemical binding]; other site 1055530002817 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1055530002818 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1055530002819 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 1055530002820 catalytic residues [active] 1055530002821 ferrochelatase; Region: hemH; TIGR00109 1055530002822 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 1055530002823 C-terminal domain interface [polypeptide binding]; other site 1055530002824 active site 1055530002825 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 1055530002826 active site 1055530002827 N-terminal domain interface [polypeptide binding]; other site 1055530002828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1055530002829 RNA methyltransferase, RsmE family; Region: TIGR00046 1055530002830 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530002831 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1055530002832 trimer interface [polypeptide binding]; other site 1055530002833 active site 1055530002834 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 1055530002835 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 1055530002836 carboxyltransferase (CT) interaction site; other site 1055530002837 biotinylation site [posttranslational modification]; other site 1055530002838 biotin carboxylase; Validated; Region: PRK08462 1055530002839 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1055530002840 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1055530002841 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1055530002842 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1055530002843 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1055530002844 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 1055530002845 inhibitor-cofactor binding pocket; inhibition site 1055530002846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1055530002847 catalytic residue [active] 1055530002848 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1055530002849 dimer interface [polypeptide binding]; other site 1055530002850 putative radical transfer pathway; other site 1055530002851 diiron center [ion binding]; other site 1055530002852 tyrosyl radical; other site 1055530002853 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 1055530002854 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 1055530002855 S-adenosylmethionine binding site [chemical binding]; other site 1055530002856 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1055530002857 Predicted permeases [General function prediction only]; Region: COG0795 1055530002858 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 1055530002859 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1055530002860 dimerization interface 3.5A [polypeptide binding]; other site 1055530002861 active site 1055530002862 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 1055530002863 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1055530002864 NAD binding site [chemical binding]; other site 1055530002865 homodimer interface [polypeptide binding]; other site 1055530002866 active site 1055530002867 substrate binding site [chemical binding]; other site 1055530002868 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1055530002869 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1055530002870 putative NAD(P) binding site [chemical binding]; other site 1055530002871 homodimer interface [polypeptide binding]; other site 1055530002872 homotetramer interface [polypeptide binding]; other site 1055530002873 active site 1055530002874 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1055530002875 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 1055530002876 binding surface 1055530002877 TPR motif; other site 1055530002878 Sel1-like repeats; Region: SEL1; smart00671 1055530002879 Sel1-like repeats; Region: SEL1; smart00671 1055530002880 Sel1-like repeats; Region: SEL1; smart00671 1055530002881 Entner-Doudoroff aldolase; Region: eda; TIGR01182 1055530002882 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1055530002883 active site 1055530002884 intersubunit interface [polypeptide binding]; other site 1055530002885 catalytic residue [active] 1055530002886 phosphogluconate dehydratase; Validated; Region: PRK09054 1055530002887 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1055530002888 Glucose-6-phosphate 1-dehydrogenase [Carbohydrate transport and metabolism]; Region: Zwf; COG0364 1055530002889 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1055530002890 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1055530002891 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1055530002892 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 1055530002893 putative active site [active] 1055530002894 glucokinase; Provisional; Region: glk; PRK00292 1055530002895 glucokinase, proteobacterial type; Region: glk; TIGR00749 1055530002896 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1055530002897 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1055530002898 putative NAD(P) binding site [chemical binding]; other site 1055530002899 putative substrate binding site [chemical binding]; other site 1055530002900 catalytic Zn binding site [ion binding]; other site 1055530002901 structural Zn binding site [ion binding]; other site 1055530002902 dimer interface [polypeptide binding]; other site 1055530002903 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1055530002904 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 1055530002905 active site 1055530002906 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530002907 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 1055530002908 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 1055530002909 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 1055530002910 4Fe-4S binding domain; Region: Fer4; pfam00037 1055530002911 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 1055530002912 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 1055530002913 dimer interface [polypeptide binding]; other site 1055530002914 PYR/PP interface [polypeptide binding]; other site 1055530002915 TPP binding site [chemical binding]; other site 1055530002916 substrate binding site [chemical binding]; other site 1055530002917 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1055530002918 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 1055530002919 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 1055530002920 TPP-binding site [chemical binding]; other site 1055530002921 putative dimer interface [polypeptide binding]; other site 1055530002922 adenylosuccinate lyase; Provisional; Region: PRK08470 1055530002923 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1055530002924 tetramer interface [polypeptide binding]; other site 1055530002925 active site 1055530002926 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 1055530002927 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530002928 excinuclease ABC subunit B; Provisional; Region: PRK05298 1055530002929 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 1055530002930 ATP binding site [chemical binding]; other site 1055530002931 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 1055530002932 putative Mg++ binding site [ion binding]; other site 1055530002933 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 1055530002934 nucleotide binding region [chemical binding]; other site 1055530002935 ATP-binding site [chemical binding]; other site 1055530002936 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1055530002937 UvrB/uvrC motif; Region: UVR; pfam02151 1055530002938 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1055530002939 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 1055530002940 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 1055530002941 binding surface 1055530002942 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1055530002943 TPR motif; other site 1055530002944 Sel1-like repeats; Region: SEL1; smart00671 1055530002945 Sel1-like repeats; Region: SEL1; smart00671 1055530002946 Sel1-like repeats; Region: SEL1; smart00671 1055530002947 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1055530002948 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 1055530002949 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 1055530002950 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1055530002951 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 1055530002952 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1055530002953 cofactor binding site; other site 1055530002954 DNA binding site [nucleotide binding] 1055530002955 substrate interaction site [chemical binding]; other site 1055530002956 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 1055530002957 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1055530002958 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1055530002959 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1055530002960 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1055530002961 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1055530002962 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1055530002963 ligand binding site [chemical binding]; other site 1055530002964 translocation protein TolB; Provisional; Region: tolB; PRK04043 1055530002965 TolB amino-terminal domain; Region: TolB_N; pfam04052 1055530002966 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1055530002967 TonB C terminal; Region: TonB_2; pfam13103 1055530002968 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1055530002969 TolR protein; Region: tolR; TIGR02801 1055530002970 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1055530002971 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 1055530002972 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1055530002973 gamma subunit interface [polypeptide binding]; other site 1055530002974 epsilon subunit interface [polypeptide binding]; other site 1055530002975 LBP interface [polypeptide binding]; other site 1055530002976 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1055530002977 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1055530002978 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 1055530002979 alpha subunit interaction interface [polypeptide binding]; other site 1055530002980 Walker A motif; other site 1055530002981 ATP binding site [chemical binding]; other site 1055530002982 Walker B motif; other site 1055530002983 inhibitor binding site; inhibition site 1055530002984 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1055530002985 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1055530002986 core domain interface [polypeptide binding]; other site 1055530002987 delta subunit interface [polypeptide binding]; other site 1055530002988 epsilon subunit interface [polypeptide binding]; other site 1055530002989 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1055530002990 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1055530002991 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 1055530002992 beta subunit interaction interface [polypeptide binding]; other site 1055530002993 Walker A motif; other site 1055530002994 ATP binding site [chemical binding]; other site 1055530002995 Walker B motif; other site 1055530002996 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1055530002997 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13431 1055530002998 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 1055530002999 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 1055530003000 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1055530003001 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1055530003002 ParB-like nuclease domain; Region: ParB; smart00470 1055530003003 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1055530003004 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 1055530003005 P-loop; other site 1055530003006 Magnesium ion binding site [ion binding]; other site 1055530003007 biotin--protein ligase; Provisional; Region: PRK08477 1055530003008 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1055530003009 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1055530003010 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1055530003011 putative active site [active] 1055530003012 substrate binding site [chemical binding]; other site 1055530003013 putative cosubstrate binding site; other site 1055530003014 catalytic site [active] 1055530003015 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1055530003016 substrate binding site [chemical binding]; other site 1055530003017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 1055530003018 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 1055530003019 LabA_like proteins; Region: LabA_like; cd06167 1055530003020 putative metal binding site [ion binding]; other site 1055530003021 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1055530003022 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1055530003023 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 1055530003024 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 1055530003025 RimM N-terminal domain; Region: RimM; pfam01782 1055530003026 PRC-barrel domain; Region: PRC; pfam05239 1055530003027 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1055530003028 KH domain; Region: KH_4; pfam13083 1055530003029 G-X-X-G motif; other site 1055530003030 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1055530003031 signal recognition particle protein; Provisional; Region: PRK10867 1055530003032 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1055530003033 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 1055530003034 P loop; other site 1055530003035 GTP binding site [chemical binding]; other site 1055530003036 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1055530003037 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1055530003038 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1055530003039 active site 1055530003040 HIGH motif; other site 1055530003041 nucleotide binding site [chemical binding]; other site 1055530003042 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1055530003043 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1055530003044 active site 1055530003045 KMSKS motif; other site 1055530003046 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1055530003047 anticodon binding site; other site 1055530003048 flagellar assembly protein FliW; Provisional; Region: PRK13283 1055530003049 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 1055530003050 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 1055530003051 active site 1055530003052 homodimer interface [polypeptide binding]; other site 1055530003053 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530003054 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530003055 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1055530003056 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1055530003057 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1055530003058 Fic/DOC family; Region: Fic; cl00960 1055530003059 metal-binding heat shock protein; Provisional; Region: PRK00016 1055530003060 flavodoxin FldA; Validated; Region: PRK09267 1055530003061 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1055530003062 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1055530003063 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 1055530003064 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1055530003065 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1055530003066 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1055530003067 potential frameshift: common BLAST hit: gi|308183268|ref|YP_003927395.1| tetracycline resistance proteintet A (P ) 1055530003068 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1055530003069 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 1055530003070 active site 1055530003071 dimer interface [polypeptide binding]; other site 1055530003072 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 1055530003073 dimer interface [polypeptide binding]; other site 1055530003074 active site 1055530003075 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1055530003076 carbon starvation protein A; Provisional; Region: PRK15015 1055530003077 Carbon starvation protein CstA; Region: CstA; pfam02554 1055530003078 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1055530003079 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1055530003080 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 1055530003081 dimer interface [polypeptide binding]; other site 1055530003082 conserved gate region; other site 1055530003083 putative PBP binding loops; other site 1055530003084 ABC-ATPase subunit interface; other site 1055530003085 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 1055530003086 dimer interface [polypeptide binding]; other site 1055530003087 conserved gate region; other site 1055530003088 putative PBP binding loops; other site 1055530003089 ABC-ATPase subunit interface; other site 1055530003090 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1055530003091 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1055530003092 Walker A/P-loop; other site 1055530003093 ATP binding site [chemical binding]; other site 1055530003094 Q-loop/lid; other site 1055530003095 ABC transporter signature motif; other site 1055530003096 Walker B; other site 1055530003097 D-loop; other site 1055530003098 H-loop/switch region; other site 1055530003099 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1055530003100 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 1055530003101 substrate binding pocket [chemical binding]; other site 1055530003102 membrane-bound complex binding site; other site 1055530003103 hinge residues; other site 1055530003104 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1055530003105 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 1055530003106 putative substrate translocation pore; other site 1055530003107 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1055530003108 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530003109 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 1055530003110 phosphopentomutase; Provisional; Region: PRK05362 1055530003111 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1055530003112 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1055530003113 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1055530003114 Nucleoside recognition; Region: Gate; pfam07670 1055530003115 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1055530003116 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 1055530003117 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1055530003118 putative substrate translocation pore; other site 1055530003119 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1055530003120 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 1055530003121 Ligand Binding Site [chemical binding]; other site 1055530003122 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1055530003123 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1055530003124 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1055530003125 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1055530003126 putative arabinose transporter; Provisional; Region: PRK03545 1055530003127 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 1055530003128 putative substrate translocation pore; other site 1055530003129 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 1055530003130 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 1055530003131 active site 1055530003132 zinc binding site [ion binding]; other site 1055530003133 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 1055530003134 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 1055530003135 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1055530003136 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 1055530003137 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 1055530003138 dimer interface [polypeptide binding]; other site 1055530003139 motif 1; other site 1055530003140 active site 1055530003141 motif 2; other site 1055530003142 motif 3; other site 1055530003143 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 1055530003144 anticodon binding site; other site 1055530003145 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1055530003146 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 1055530003147 putative active site [active] 1055530003148 potential frameshift: common BLAST hit: gi|254779741|ref|YP_003057847.1| aldo-keto reductase 1055530003149 elongation factor G; Reviewed; Region: PRK00007 1055530003150 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1055530003151 G1 box; other site 1055530003152 putative GEF interaction site [polypeptide binding]; other site 1055530003153 GTP/Mg2+ binding site [chemical binding]; other site 1055530003154 Switch I region; other site 1055530003155 G2 box; other site 1055530003156 G3 box; other site 1055530003157 Switch II region; other site 1055530003158 G4 box; other site 1055530003159 G5 box; other site 1055530003160 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 1055530003161 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 1055530003162 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 1055530003163 30S ribosomal protein S7; Validated; Region: PRK05302 1055530003164 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 1055530003165 S17 interaction site [polypeptide binding]; other site 1055530003166 S8 interaction site; other site 1055530003167 16S rRNA interaction site [nucleotide binding]; other site 1055530003168 streptomycin interaction site [chemical binding]; other site 1055530003169 23S rRNA interaction site [nucleotide binding]; other site 1055530003170 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1055530003171 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 1055530003172 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 1055530003173 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1055530003174 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 1055530003175 RPB11 interaction site [polypeptide binding]; other site 1055530003176 RPB12 interaction site [polypeptide binding]; other site 1055530003177 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 1055530003178 RPB3 interaction site [polypeptide binding]; other site 1055530003179 RPB1 interaction site [polypeptide binding]; other site 1055530003180 RPB11 interaction site [polypeptide binding]; other site 1055530003181 RPB10 interaction site [polypeptide binding]; other site 1055530003182 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1055530003183 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1055530003184 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1055530003185 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1055530003186 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1055530003187 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1055530003188 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1055530003189 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1055530003190 DNA binding site [nucleotide binding] 1055530003191 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1055530003192 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 1055530003193 core dimer interface [polypeptide binding]; other site 1055530003194 peripheral dimer interface [polypeptide binding]; other site 1055530003195 L10 interface [polypeptide binding]; other site 1055530003196 L11 interface [polypeptide binding]; other site 1055530003197 putative EF-Tu interaction site [polypeptide binding]; other site 1055530003198 putative EF-G interaction site [polypeptide binding]; other site 1055530003199 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 1055530003200 23S rRNA interface [nucleotide binding]; other site 1055530003201 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1055530003202 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 1055530003203 mRNA/rRNA interface [nucleotide binding]; other site 1055530003204 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1055530003205 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 1055530003206 23S rRNA interface [nucleotide binding]; other site 1055530003207 L7/L12 interface [polypeptide binding]; other site 1055530003208 putative thiostrepton binding site; other site 1055530003209 L25 interface [polypeptide binding]; other site 1055530003210 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1055530003211 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1055530003212 putative homodimer interface [polypeptide binding]; other site 1055530003213 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1055530003214 heterodimer interface [polypeptide binding]; other site 1055530003215 homodimer interface [polypeptide binding]; other site 1055530003216 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 1055530003217 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1055530003218 elongation factor Tu; Reviewed; Region: PRK00049 1055530003219 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1055530003220 G1 box; other site 1055530003221 GEF interaction site [polypeptide binding]; other site 1055530003222 GTP/Mg2+ binding site [chemical binding]; other site 1055530003223 Switch I region; other site 1055530003224 G2 box; other site 1055530003225 G3 box; other site 1055530003226 Switch II region; other site 1055530003227 G4 box; other site 1055530003228 G5 box; other site 1055530003229 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 1055530003230 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 1055530003231 Antibiotic Binding Site [chemical binding]; other site 1055530003232 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1055530003233 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1055530003234 Walker A/P-loop; other site 1055530003235 ATP binding site [chemical binding]; other site 1055530003236 Q-loop/lid; other site 1055530003237 ABC transporter signature motif; other site 1055530003238 Walker B; other site 1055530003239 D-loop; other site 1055530003240 H-loop/switch region; other site 1055530003241 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1055530003242 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1055530003243 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1055530003244 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 1055530003245 Helicobacter pylori IceA2 protein; Region: IceA2; pfam05862 1055530003246 serine O-acetyltransferase; Region: cysE; TIGR01172 1055530003247 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 1055530003248 trimer interface [polypeptide binding]; other site 1055530003249 active site 1055530003250 substrate binding site [chemical binding]; other site 1055530003251 CoA binding site [chemical binding]; other site 1055530003252 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 1055530003253 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1055530003254 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1055530003255 oligomer interface [polypeptide binding]; other site 1055530003256 RNA binding site [nucleotide binding]; other site 1055530003257 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1055530003258 oligomer interface [polypeptide binding]; other site 1055530003259 RNA binding site [nucleotide binding]; other site 1055530003260 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 1055530003261 putative nucleic acid binding region [nucleotide binding]; other site 1055530003262 G-X-X-G motif; other site 1055530003263 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1055530003264 RNA binding site [nucleotide binding]; other site 1055530003265 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 1055530003266 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1055530003267 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1055530003268 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1055530003269 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 1055530003270 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1055530003271 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1055530003272 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1055530003273 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1055530003274 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1055530003275 Walker A/P-loop; other site 1055530003276 ATP binding site [chemical binding]; other site 1055530003277 Q-loop/lid; other site 1055530003278 ABC transporter signature motif; other site 1055530003279 Walker B; other site 1055530003280 D-loop; other site 1055530003281 H-loop/switch region; other site 1055530003282 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1055530003283 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 1055530003284 catalytic residue [active] 1055530003285 putative FPP diphosphate binding site; other site 1055530003286 putative FPP binding hydrophobic cleft; other site 1055530003287 dimer interface [polypeptide binding]; other site 1055530003288 putative IPP diphosphate binding site; other site 1055530003289 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1055530003290 FAD binding domain; Region: FAD_binding_4; pfam01565 1055530003291 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1055530003292 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 1055530003293 active site residue [active] 1055530003294 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1055530003295 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 1055530003296 active site 1055530003297 camphor resistance protein CrcB; Provisional; Region: PRK14204 1055530003298 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 1055530003299 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 1055530003300 FeS/SAM binding site; other site 1055530003301 HemN C-terminal domain; Region: HemN_C; pfam06969 1055530003302 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1055530003303 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 1055530003304 putative active site [active] 1055530003305 Ap4A binding site [chemical binding]; other site 1055530003306 nudix motif; other site 1055530003307 putative metal binding site [ion binding]; other site 1055530003308 aspartate kinase; Reviewed; Region: PRK06635 1055530003309 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 1055530003310 putative nucleotide binding site [chemical binding]; other site 1055530003311 putative catalytic residues [active] 1055530003312 putative Mg ion binding site [ion binding]; other site 1055530003313 putative aspartate binding site [chemical binding]; other site 1055530003314 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 1055530003315 putative allosteric regulatory site; other site 1055530003316 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 1055530003317 putative allosteric regulatory residue; other site 1055530003318 DNA replication regulator; Region: HobA; pfam12163 1055530003319 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1055530003320 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 1055530003321 dihydropteroate synthase; Region: DHPS; TIGR01496 1055530003322 substrate binding pocket [chemical binding]; other site 1055530003323 dimer interface [polypeptide binding]; other site 1055530003324 inhibitor binding site; inhibition site 1055530003325 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1055530003326 EamA-like transporter family; Region: EamA; pfam00892 1055530003327 EamA-like transporter family; Region: EamA; cl17759 1055530003328 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1055530003329 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 1055530003330 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 1055530003331 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1055530003332 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1055530003333 catalytic site [active] 1055530003334 subunit interface [polypeptide binding]; other site 1055530003335 formamidase; Provisional; Region: amiF; PRK13287 1055530003336 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 1055530003337 multimer interface [polypeptide binding]; other site 1055530003338 active site 1055530003339 catalytic triad [active] 1055530003340 dimer interface [polypeptide binding]; other site 1055530003341 Maf-like protein; Reviewed; Region: PRK04056 1055530003342 putative active site [active] 1055530003343 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1055530003344 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 1055530003345 motif 1; other site 1055530003346 active site 1055530003347 motif 2; other site 1055530003348 motif 3; other site 1055530003349 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1055530003350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1055530003351 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530003352 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1055530003353 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1055530003354 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 1055530003355 dimer interface [polypeptide binding]; other site 1055530003356 ssDNA binding site [nucleotide binding]; other site 1055530003357 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1055530003358 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1055530003359 DNA polymerase III subunit delta; Validated; Region: PRK08487 1055530003360 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1055530003361 Exoribonuclease R [Transcription]; Region: VacB; COG0557 1055530003362 RNB domain; Region: RNB; pfam00773 1055530003363 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 1055530003364 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1055530003365 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1055530003366 shikimate binding site; other site 1055530003367 NAD(P) binding site [chemical binding]; other site 1055530003368 Bacterial SH3 domain; Region: SH3_3; pfam08239 1055530003369 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1055530003370 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 1055530003371 dimer interface [polypeptide binding]; other site 1055530003372 conserved gate region; other site 1055530003373 putative PBP binding loops; other site 1055530003374 ABC-ATPase subunit interface; other site 1055530003375 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1055530003376 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 1055530003377 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1055530003378 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1055530003379 active site 1055530003380 HIGH motif; other site 1055530003381 dimer interface [polypeptide binding]; other site 1055530003382 KMSKS motif; other site 1055530003383 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1055530003384 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 1055530003385 S-adenosylmethionine binding site [chemical binding]; other site 1055530003386 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1055530003387 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1055530003388 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 1055530003389 hinge region; other site 1055530003390 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1055530003391 active site 1055530003392 RDD family; Region: RDD; pfam06271 1055530003393 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 1055530003394 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 1055530003395 NAD+ binding site [chemical binding]; other site 1055530003396 substrate binding site [chemical binding]; other site 1055530003397 Zn binding site [ion binding]; other site 1055530003398 NADH dehydrogenase subunit A; Validated; Region: PRK08489 1055530003399 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1055530003400 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 1055530003401 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1055530003402 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1055530003403 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1055530003404 NADH dehydrogenase subunit G; Validated; Region: PRK08493 1055530003405 NADH dehydrogenase subunit G; Validated; Region: PRK08493 1055530003406 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 1055530003407 catalytic loop [active] 1055530003408 iron binding site [ion binding]; other site 1055530003409 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1055530003410 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 1055530003411 molybdopterin cofactor binding site; other site 1055530003412 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1055530003413 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1055530003414 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1055530003415 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1055530003416 4Fe-4S binding domain; Region: Fer4; cl02805 1055530003417 4Fe-4S binding domain; Region: Fer4; pfam00037 1055530003418 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1055530003419 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1055530003420 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1055530003421 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1055530003422 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1055530003423 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1055530003424 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1055530003425 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1055530003426 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 1055530003427 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1055530003428 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1055530003429 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1055530003430 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 1055530003431 active site 1055530003432 substrate binding site [chemical binding]; other site 1055530003433 metal binding site [ion binding]; metal-binding site 1055530003434 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 1055530003435 substrate binding site [chemical binding]; other site 1055530003436 active site 1055530003437 catalytic residues [active] 1055530003438 heterodimer interface [polypeptide binding]; other site 1055530003439 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1055530003440 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 1055530003441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1055530003442 catalytic residue [active] 1055530003443 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1055530003444 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 1055530003445 active site 1055530003446 ribulose/triose binding site [chemical binding]; other site 1055530003447 phosphate binding site [ion binding]; other site 1055530003448 substrate (anthranilate) binding pocket [chemical binding]; other site 1055530003449 product (indole) binding pocket [chemical binding]; other site 1055530003450 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 1055530003451 active site 1055530003452 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1055530003453 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 1055530003454 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1055530003455 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1055530003456 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1055530003457 glutamine binding [chemical binding]; other site 1055530003458 catalytic triad [active] 1055530003459 anthranilate synthase component I, proteobacterial subset; Region: trpE_proteo; TIGR00565 1055530003460 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1055530003461 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1055530003462 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1055530003463 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 1055530003464 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 1055530003465 active site 1055530003466 motif I; other site 1055530003467 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1055530003468 motif II; other site 1055530003469 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1055530003470 thiaminase II; Region: salvage_TenA; TIGR04306 1055530003471 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1055530003472 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1055530003473 Thiamine pyrophosphokinase; Region: TPK; cd07995 1055530003474 active site 1055530003475 dimerization interface [polypeptide binding]; other site 1055530003476 thiamine binding site [chemical binding]; other site 1055530003477 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1055530003478 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1055530003479 alphaNTD homodimer interface [polypeptide binding]; other site 1055530003480 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 1055530003481 alphaNTD - beta interaction site [polypeptide binding]; other site 1055530003482 alphaNTD - beta' interaction site [polypeptide binding]; other site 1055530003483 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1055530003484 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1055530003485 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1055530003486 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 1055530003487 RNA binding surface [nucleotide binding]; other site 1055530003488 30S ribosomal protein S11; Validated; Region: PRK05309 1055530003489 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1055530003490 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1055530003491 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 1055530003492 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 1055530003493 rRNA binding site [nucleotide binding]; other site 1055530003494 predicted 30S ribosome binding site; other site 1055530003495 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 1055530003496 active site 1055530003497 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1055530003498 SecY translocase; Region: SecY; pfam00344 1055530003499 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1055530003500 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 1055530003501 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1055530003502 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1055530003503 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 1055530003504 23S rRNA interface [nucleotide binding]; other site 1055530003505 5S rRNA interface [nucleotide binding]; other site 1055530003506 L27 interface [polypeptide binding]; other site 1055530003507 L5 interface [polypeptide binding]; other site 1055530003508 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1055530003509 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1055530003510 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1055530003511 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1055530003512 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1055530003513 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1055530003514 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1055530003515 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1055530003516 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1055530003517 RNA binding site [nucleotide binding]; other site 1055530003518 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1055530003519 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1055530003520 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 1055530003521 putative translocon interaction site; other site 1055530003522 23S rRNA interface [nucleotide binding]; other site 1055530003523 signal recognition particle (SRP54) interaction site; other site 1055530003524 L23 interface [polypeptide binding]; other site 1055530003525 trigger factor interaction site; other site 1055530003526 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 1055530003527 23S rRNA interface [nucleotide binding]; other site 1055530003528 5S rRNA interface [nucleotide binding]; other site 1055530003529 putative antibiotic binding site [chemical binding]; other site 1055530003530 L25 interface [polypeptide binding]; other site 1055530003531 L27 interface [polypeptide binding]; other site 1055530003532 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1055530003533 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 1055530003534 G-X-X-G motif; other site 1055530003535 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1055530003536 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 1055530003537 putative translocon binding site; other site 1055530003538 protein-rRNA interface [nucleotide binding]; other site 1055530003539 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1055530003540 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1055530003541 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1055530003542 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1055530003543 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1055530003544 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1055530003545 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1055530003546 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1055530003547 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1055530003548 AAA domain; Region: AAA_14; pfam13173 1055530003549 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1055530003550 RNA/DNA hybrid binding site [nucleotide binding]; other site 1055530003551 active site 1055530003552 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1055530003553 Class II fumarases; Region: Fumarase_classII; cd01362 1055530003554 active site 1055530003555 tetramer interface [polypeptide binding]; other site 1055530003556 YtkA-like; Region: YtkA; pfam13115 1055530003557 Outer membrane efflux protein; Region: OEP; pfam02321 1055530003558 HlyD family secretion protein; Region: HlyD_2; pfam12700 1055530003559 HlyD family secretion protein; Region: HlyD_3; pfam13437 1055530003560 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1055530003561 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 1055530003562 AzlC protein; Region: AzlC; cl00570 1055530003563 chaperone protein DnaJ; Provisional; Region: PRK14288 1055530003564 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 1055530003565 HSP70 interaction site [polypeptide binding]; other site 1055530003566 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1055530003567 substrate binding site [polypeptide binding]; other site 1055530003568 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1055530003569 Zn binding sites [ion binding]; other site 1055530003570 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1055530003571 dimer interface [polypeptide binding]; other site 1055530003572 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 1055530003573 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 1055530003574 Ligand Binding Site [chemical binding]; other site 1055530003575 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 1055530003576 HSP70 interaction site [polypeptide binding]; other site 1055530003577 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1055530003578 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1055530003579 active site 1055530003580 (T/H)XGH motif; other site 1055530003581 nickel responsive regulator; Provisional; Region: PRK00630 1055530003582 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1055530003583 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1055530003584 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1055530003585 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1055530003586 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1055530003587 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1055530003588 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1055530003589 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530003590 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1055530003591 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1055530003592 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 1055530003593 Cl binding site [ion binding]; other site 1055530003594 oligomer interface [polypeptide binding]; other site 1055530003595 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1055530003596 Phosphoglycerate kinase; Region: PGK; pfam00162 1055530003597 substrate binding site [chemical binding]; other site 1055530003598 hinge regions; other site 1055530003599 ADP binding site [chemical binding]; other site 1055530003600 catalytic site [active] 1055530003601 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1055530003602 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1055530003603 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1055530003604 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1055530003605 ligand binding site [chemical binding]; other site 1055530003606 active site 1055530003607 UGI interface [polypeptide binding]; other site 1055530003608 catalytic site [active] 1055530003609 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1055530003610 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1055530003611 putative acyl-acceptor binding pocket; other site 1055530003612 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1055530003613 C-terminal peptidase (prc); Region: prc; TIGR00225 1055530003614 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 1055530003615 protein binding site [polypeptide binding]; other site 1055530003616 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1055530003617 Catalytic dyad [active] 1055530003618 Predicted helicase [General function prediction only]; Region: COG4889 1055530003619 Predicted helicase [General function prediction only]; Region: COG4889 1055530003620 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 1055530003621 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 1055530003622 dimerization interface [polypeptide binding]; other site 1055530003623 active site 1055530003624 quinolinate synthetase complex, A subunit; Region: nadA; TIGR00550 1055530003625 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 1055530003626 prenyltransferase; Reviewed; Region: ubiA; PRK12874 1055530003627 UbiA prenyltransferase family; Region: UbiA; pfam01040 1055530003628 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1055530003629 Competence protein; Region: Competence; pfam03772 1055530003630 replicative DNA helicase; Provisional; Region: PRK08506 1055530003631 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1055530003632 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 1055530003633 Walker A motif; other site 1055530003634 ATP binding site [chemical binding]; other site 1055530003635 Walker B motif; other site 1055530003636 DNA binding loops [nucleotide binding] 1055530003637 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 1055530003638 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 1055530003639 putative substrate binding site [chemical binding]; other site 1055530003640 putative ATP binding site [chemical binding]; other site 1055530003641 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1055530003642 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1055530003643 dimer interface [polypeptide binding]; other site 1055530003644 phosphorylation site [posttranslational modification] 1055530003645 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 1055530003646 ATP binding site [chemical binding]; other site 1055530003647 Mg2+ binding site [ion binding]; other site 1055530003648 G-X-G motif; other site 1055530003649 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1055530003650 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 1055530003651 active site 1055530003652 phosphorylation site [posttranslational modification] 1055530003653 intermolecular recognition site; other site 1055530003654 dimerization interface [polypeptide binding]; other site 1055530003655 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 1055530003656 DNA binding site [nucleotide binding] 1055530003657 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1055530003658 DNA methylase; Region: N6_N4_Mtase; pfam01555 1055530003659 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1055530003660 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 1055530003661 ATP binding site [chemical binding]; other site 1055530003662 putative Mg++ binding site [ion binding]; other site 1055530003663 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1055530003664 rod shape-determining protein MreC; Region: MreC; pfam04085 1055530003665 rod shape-determining protein MreB; Provisional; Region: PRK13927 1055530003666 MreB and similar proteins; Region: MreB_like; cd10225 1055530003667 nucleotide binding site [chemical binding]; other site 1055530003668 Mg binding site [ion binding]; other site 1055530003669 putative protofilament interaction site [polypeptide binding]; other site 1055530003670 RodZ interaction site [polypeptide binding]; other site 1055530003671 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 1055530003672 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1055530003673 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1055530003674 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 1055530003675 Walker A motif; other site 1055530003676 ATP binding site [chemical binding]; other site 1055530003677 Walker B motif; other site 1055530003678 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1055530003679 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1055530003680 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 1055530003681 active site 1055530003682 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 1055530003683 flagellar assembly protein FliW; Provisional; Region: PRK13282 1055530003684 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1055530003685 ATP-dependent protease La; Region: lon; TIGR00763 1055530003686 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 1055530003687 Walker A motif; other site 1055530003688 ATP binding site [chemical binding]; other site 1055530003689 Walker B motif; other site 1055530003690 arginine finger; other site 1055530003691 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1055530003692 prephenate dehydrogenase; Validated; Region: PRK08507 1055530003693 Prephenate dehydrogenase; Region: PDH; pfam02153 1055530003694 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 1055530003695 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1055530003696 active site 1055530003697 substrate binding site [chemical binding]; other site 1055530003698 Mg2+ binding site [ion binding]; other site 1055530003699 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 1055530003700 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1055530003701 DNA methylase; Region: N6_N4_Mtase; pfam01555 1055530003702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 1055530003703 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 1055530003704 ATP binding site [chemical binding]; other site 1055530003705 putative Mg++ binding site [ion binding]; other site 1055530003706 biotin synthase; Provisional; Region: PRK08508 1055530003707 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 1055530003708 FeS/SAM binding site; other site 1055530003709 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1055530003710 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 1055530003711 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 1055530003712 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1055530003713 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1055530003714 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 1055530003715 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1055530003716 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 1055530003717 Ligand binding site; other site 1055530003718 metal-binding site 1055530003719 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 1055530003720 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1055530003721 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1055530003722 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 1055530003723 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 1055530003724 Walker A motif/ATP binding site; other site 1055530003725 Walker B motif; other site 1055530003726 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 1055530003727 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 1055530003728 ATP binding site [chemical binding]; other site 1055530003729 Walker A motif; other site 1055530003730 hexamer interface [polypeptide binding]; other site 1055530003731 Walker B motif; other site 1055530003732 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1055530003733 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1055530003734 active site 1055530003735 HIGH motif; other site 1055530003736 nucleotide binding site [chemical binding]; other site 1055530003737 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1055530003738 active site 1055530003739 KMSKS motif; other site 1055530003740 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1055530003741 tRNA binding surface [nucleotide binding]; other site 1055530003742 anticodon binding site; other site 1055530003743 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1055530003744 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 1055530003745 RNA binding surface [nucleotide binding]; other site 1055530003746 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 1055530003747 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 1055530003748 FeS/SAM binding site; other site 1055530003749 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1055530003750 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 1055530003751 putative active site [active] 1055530003752 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 1055530003753 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1055530003754 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1055530003755 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1055530003756 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1055530003757 dimethyladenosine transferase; Region: ksgA; TIGR00755 1055530003758 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1055530003759 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1055530003760 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1055530003761 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1055530003762 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 1055530003763 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1055530003764 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1055530003765 active site 1055530003766 substrate binding site [chemical binding]; other site 1055530003767 cosubstrate binding site; other site 1055530003768 catalytic site [active] 1055530003769 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1055530003770 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1055530003771 tandem repeat interface [polypeptide binding]; other site 1055530003772 oligomer interface [polypeptide binding]; other site 1055530003773 active site residues [active] 1055530003774 potential frameshift: common BLAST hit: gi|15646047|ref|NP_208229.1| lipoprotein 1055530003775 ribonuclease Y; Region: RNase_Y; TIGR03319 1055530003776 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 1055530003777 active site 1055530003778 carbon storage regulator; Provisional; Region: PRK00568 1055530003779 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 1055530003780 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 1055530003781 SmpB-tmRNA interface; other site 1055530003782 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1055530003783 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1055530003784 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1055530003785 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1055530003786 ribonuclease P protein component, eubacterial; Region: rnpA; TIGR00188 1055530003787 hypothetical protein; Provisional; Region: PRK14374 1055530003788 membrane protein insertase; Provisional; Region: PRK01318 1055530003789 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1055530003790 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1055530003791 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1055530003792 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 1055530003793 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1055530003794 GTP/Mg2+ binding site [chemical binding]; other site 1055530003795 G4 box; other site 1055530003796 G5 box; other site 1055530003797 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1055530003798 G1 box; other site 1055530003799 G1 box; other site 1055530003800 GTP/Mg2+ binding site [chemical binding]; other site 1055530003801 Switch I region; other site 1055530003802 Switch I region; other site 1055530003803 G2 box; other site 1055530003804 G2 box; other site 1055530003805 Switch II region; other site 1055530003806 G3 box; other site 1055530003807 G3 box; other site 1055530003808 Switch II region; other site 1055530003809 G4 box; other site 1055530003810 G5 box; other site 1055530003811 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1055530003812 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530003813 LPP20 lipoprotein; Region: LPP20; pfam02169 1055530003814 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 1055530003815 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 1055530003816 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1055530003817 catalytic residues [active] 1055530003818 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1055530003819 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 1055530003820 RNA binding surface [nucleotide binding]; other site 1055530003821 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1055530003822 active site 1055530003823 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1055530003824 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1055530003825 active site 1055530003826 PHP Thumb interface [polypeptide binding]; other site 1055530003827 metal binding site [ion binding]; metal-binding site 1055530003828 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 1055530003829 generic binding surface I; other site 1055530003830 generic binding surface II; other site 1055530003831 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1055530003832 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1055530003833 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1055530003834 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1055530003835 mce related protein; Region: MCE; pfam02470 1055530003836 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1055530003837 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1055530003838 Walker A/P-loop; other site 1055530003839 ATP binding site [chemical binding]; other site 1055530003840 Q-loop/lid; other site 1055530003841 ABC transporter signature motif; other site 1055530003842 Walker B; other site 1055530003843 D-loop; other site 1055530003844 H-loop/switch region; other site 1055530003845 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1055530003846 conserved hypothetical integral membrane protein; Region: TIGR00056 1055530003847 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530003848 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1055530003849 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 1055530003850 homodimer interface [polypeptide binding]; other site 1055530003851 substrate-cofactor binding pocket; other site 1055530003852 catalytic residue [active] 1055530003853 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530003854 DNA polymerase I; Region: pola; TIGR00593 1055530003855 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1055530003856 active site 1055530003857 metal binding site 1 [ion binding]; metal-binding site 1055530003858 putative 5' ssDNA interaction site; other site 1055530003859 metal binding site 3; metal-binding site 1055530003860 metal binding site 2 [ion binding]; metal-binding site 1055530003861 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1055530003862 putative DNA binding site [nucleotide binding]; other site 1055530003863 putative metal binding site [ion binding]; other site 1055530003864 3'-5' exonuclease; Region: 35EXOc; smart00474 1055530003865 active site 1055530003866 substrate binding site [chemical binding]; other site 1055530003867 catalytic site [active] 1055530003868 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1055530003869 active site 1055530003870 DNA binding site [nucleotide binding] 1055530003871 catalytic site [active] 1055530003872 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1055530003873 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1055530003874 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1055530003875 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1055530003876 thymidylate kinase; Validated; Region: tmk; PRK00698 1055530003877 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 1055530003878 TMP-binding site; other site 1055530003879 ATP-binding site [chemical binding]; other site 1055530003880 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 1055530003881 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1055530003882 active site 1055530003883 (T/H)XGH motif; other site 1055530003884 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1055530003885 Flavoprotein; Region: Flavoprotein; pfam02441 1055530003886 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 1055530003887 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 1055530003888 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1055530003889 Part of AAA domain; Region: AAA_19; pfam13245 1055530003890 Family description; Region: UvrD_C_2; pfam13538 1055530003891 TPR repeat; Region: TPR_11; pfam13414 1055530003892 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 1055530003893 TPR motif; other site 1055530003894 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 1055530003895 binding surface 1055530003896 TPR motif; other site 1055530003897 seryl-tRNA synthetase; Provisional; Region: PRK05431 1055530003898 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1055530003899 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 1055530003900 dimer interface [polypeptide binding]; other site 1055530003901 active site 1055530003902 motif 1; other site 1055530003903 motif 2; other site 1055530003904 motif 3; other site 1055530003905 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1055530003906 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1055530003907 active site 1055530003908 catalytic triad [active] 1055530003909 dimer interface [polypeptide binding]; other site 1055530003910 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14065 1055530003911 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1055530003912 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 1055530003913 S-adenosylmethionine binding site [chemical binding]; other site 1055530003914 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1055530003915 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 1055530003916 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1055530003917 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1055530003918 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1055530003919 Predicted membrane protein [Function unknown]; Region: COG1511 1055530003920 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1055530003921 HlyD family secretion protein; Region: HlyD_3; pfam13437 1055530003922 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1055530003923 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1055530003924 Domain of unknown function DUF21; Region: DUF21; pfam01595 1055530003925 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 1055530003926 Transporter associated domain; Region: CorC_HlyC; smart01091 1055530003927 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1055530003928 Phosphate transporter family; Region: PHO4; pfam01384 1055530003929 NifU-like domain; Region: NifU; pfam01106 1055530003930 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 1055530003931 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1055530003932 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1055530003933 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 1055530003934 putative active site [active] 1055530003935 transaldolase; Provisional; Region: PRK03903 1055530003936 catalytic residue [active] 1055530003937 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1055530003938 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1055530003939 5S rRNA interface [nucleotide binding]; other site 1055530003940 CTC domain interface [polypeptide binding]; other site 1055530003941 L16 interface [polypeptide binding]; other site 1055530003942 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 1055530003943 putative active site [active] 1055530003944 catalytic residue [active] 1055530003945 Predicted permeases [General function prediction only]; Region: COG0795 1055530003946 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1055530003947 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1055530003948 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1055530003949 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1055530003950 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 1055530003951 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530003952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 1055530003953 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1055530003954 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1055530003955 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 1055530003956 metal-binding site [ion binding] 1055530003957 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1055530003958 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1055530003959 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1055530003960 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 1055530003961 S-adenosylmethionine binding site [chemical binding]; other site 1055530003962 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 1055530003963 catalytic motif [active] 1055530003964 Zn binding site [ion binding]; other site 1055530003965 RibD C-terminal domain; Region: RibD_C; cl17279 1055530003966 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1055530003967 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1055530003968 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1055530003969 NAD(P) binding pocket [chemical binding]; other site 1055530003970 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1055530003971 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1055530003972 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1055530003973 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 1055530003974 FolB domain; Region: folB_dom; TIGR00526 1055530003975 active site 1055530003976 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1055530003977 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 1055530003978 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 1055530003979 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1055530003980 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 1055530003981 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 1055530003982 NusA N-terminal domain; Region: NusA_N; pfam08529 1055530003983 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 1055530003984 RNA binding site [nucleotide binding]; other site 1055530003985 homodimer interface [polypeptide binding]; other site 1055530003986 NusA-like KH domain; Region: KH_5; pfam13184 1055530003987 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 1055530003988 G-X-X-G motif; other site 1055530003989 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 1055530003990 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1055530003991 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 1055530003992 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1055530003993 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 1055530003994 ATP binding site [chemical binding]; other site 1055530003995 putative Mg++ binding site [ion binding]; other site 1055530003996 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1055530003997 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1055530003998 DNA methylase; Region: N6_N4_Mtase; pfam01555 1055530003999 DNA methylase; Region: N6_N4_Mtase; pfam01555 1055530004000 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 1055530004001 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 1055530004002 ssDNA binding site; other site 1055530004003 generic binding surface II; other site 1055530004004 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 1055530004005 ATP binding site [chemical binding]; other site 1055530004006 putative Mg++ binding site [ion binding]; other site 1055530004007 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 1055530004008 nucleotide binding region [chemical binding]; other site 1055530004009 ATP-binding site [chemical binding]; other site 1055530004010 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530004011 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1055530004012 active site 1055530004013 putative catalytic site [active] 1055530004014 DNA binding site [nucleotide binding] 1055530004015 putative phosphate binding site [ion binding]; other site 1055530004016 metal binding site A [ion binding]; metal-binding site 1055530004017 AP binding site [nucleotide binding]; other site 1055530004018 metal binding site B [ion binding]; metal-binding site 1055530004019 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1055530004020 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 1055530004021 Walker A motif; other site 1055530004022 ATP binding site [chemical binding]; other site 1055530004023 Walker B motif; other site 1055530004024 arginine finger; other site 1055530004025 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 1055530004026 DnaA box-binding interface [nucleotide binding]; other site 1055530004027 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1055530004028 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 1055530004029 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 1055530004030 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 1055530004031 glutaminase active site [active] 1055530004032 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 1055530004033 dimer interface [polypeptide binding]; other site 1055530004034 active site 1055530004035 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 1055530004036 dimer interface [polypeptide binding]; other site 1055530004037 active site 1055530004038 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 1055530004039 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1055530004040 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1055530004041 potential frameshift: common BLAST hit: gi|188528306|ref|YP_001910993.1| type I restriction enzyme M protein (hsdM) 1055530004042 Protein of unknown function DUF45; Region: DUF45; pfam01863 1055530004043 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1055530004044 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 1055530004045 N-terminal plug; other site 1055530004046 ligand-binding site [chemical binding]; other site 1055530004047 Arginase family; Region: Arginase; cd09989 1055530004048 active site 1055530004049 Mn binding site [ion binding]; other site 1055530004050 oligomer interface [polypeptide binding]; other site 1055530004051 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1055530004052 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1055530004053 hexamer interface [polypeptide binding]; other site 1055530004054 ligand binding site [chemical binding]; other site 1055530004055 putative active site [active] 1055530004056 NAD(P) binding site [chemical binding]; other site 1055530004057 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1055530004058 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 1055530004059 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1055530004060 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1055530004061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1055530004062 Walker A/P-loop; other site 1055530004063 ATP binding site [chemical binding]; other site 1055530004064 Q-loop/lid; other site 1055530004065 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1055530004066 ABC transporter signature motif; other site 1055530004067 Walker B; other site 1055530004068 D-loop; other site 1055530004069 H-loop/switch region; other site 1055530004070 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 1055530004071 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1055530004072 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 1055530004073 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1055530004074 active site 1055530004075 catalytic site [active] 1055530004076 substrate binding site [chemical binding]; other site 1055530004077 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 1055530004078 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1055530004079 substrate binding site [chemical binding]; other site 1055530004080 hexamer interface [polypeptide binding]; other site 1055530004081 metal binding site [ion binding]; metal-binding site 1055530004082 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 1055530004083 active site 1055530004084 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1055530004085 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1055530004086 Cytochrome c; Region: Cytochrom_C; pfam00034 1055530004087 Cytochrome c; Region: Cytochrom_C; cl11414 1055530004088 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1055530004089 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 1055530004090 intrachain domain interface; other site 1055530004091 interchain domain interface [polypeptide binding]; other site 1055530004092 heme bH binding site [chemical binding]; other site 1055530004093 Qi binding site; other site 1055530004094 heme bL binding site [chemical binding]; other site 1055530004095 Qo binding site; other site 1055530004096 interchain domain interface [polypeptide binding]; other site 1055530004097 intrachain domain interface; other site 1055530004098 Qi binding site; other site 1055530004099 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1055530004100 Qo binding site; other site 1055530004101 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1055530004102 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1055530004103 iron-sulfur cluster [ion binding]; other site 1055530004104 [2Fe-2S] cluster binding site [ion binding]; other site 1055530004105 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 1055530004106 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 1055530004107 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 1055530004108 ATP binding site [chemical binding]; other site 1055530004109 putative Mg++ binding site [ion binding]; other site 1055530004110 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 1055530004111 nucleotide binding region [chemical binding]; other site 1055530004112 ATP-binding site [chemical binding]; other site 1055530004113 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1055530004114 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1055530004115 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1055530004116 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1055530004117 Peptidase family M23; Region: Peptidase_M23; pfam01551 1055530004118 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1055530004119 Peptidase family M23; Region: Peptidase_M23; pfam01551 1055530004120 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1055530004121 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1055530004122 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1055530004123 Lipopolysaccharide-assembly; Region: LptE; pfam04390 1055530004124 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1055530004125 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1055530004126 HIGH motif; other site 1055530004127 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1055530004128 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1055530004129 active site 1055530004130 KMSKS motif; other site 1055530004131 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1055530004132 tRNA binding surface [nucleotide binding]; other site 1055530004133 anticodon binding site; other site 1055530004134 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 1055530004135 Protein export membrane protein; Region: SecD_SecF; pfam02355 1055530004136 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1055530004137 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1055530004138 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1055530004139 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 1055530004140 putative recombination protein RecB; Provisional; Region: PRK13909 1055530004141 Family description; Region: UvrD_C_2; pfam13538 1055530004142 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1055530004143 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 1055530004144 rRNA interaction site [nucleotide binding]; other site 1055530004145 S8 interaction site; other site 1055530004146 putative laminin-1 binding site; other site 1055530004147 elongation factor Ts; Provisional; Region: tsf; PRK09377 1055530004148 UBA/TS-N domain; Region: UBA; pfam00627 1055530004149 Elongation factor TS; Region: EF_TS; pfam00889 1055530004150 Elongation factor TS; Region: EF_TS; pfam00889 1055530004151 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1055530004152 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1055530004153 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1055530004154 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 1055530004155 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1055530004156 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1055530004157 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1055530004158 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1055530004159 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 1055530004160 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1055530004161 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 1055530004162 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1055530004163 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 1055530004164 dimer interface [polypeptide binding]; other site 1055530004165 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1055530004166 catalytic triad [active] 1055530004167 peroxidatic and resolving cysteines [active] 1055530004168 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1055530004169 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1055530004170 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1055530004171 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1055530004172 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1055530004173 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1055530004174 G1 box; other site 1055530004175 GTP/Mg2+ binding site [chemical binding]; other site 1055530004176 Switch I region; other site 1055530004177 G2 box; other site 1055530004178 G3 box; other site 1055530004179 Switch II region; other site 1055530004180 G4 box; other site 1055530004181 G5 box; other site 1055530004182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 1055530004183 OstA-like protein; Region: OstA; pfam03968 1055530004184 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 1055530004185 motif II; other site 1055530004186 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1055530004187 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1055530004188 Sporulation related domain; Region: SPOR; pfam05036 1055530004189 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 1055530004190 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1055530004191 catalytic residue [active] 1055530004192 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1055530004193 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1055530004194 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1055530004195 active site 1055530004196 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 1055530004197 Lumazine binding domain; Region: Lum_binding; pfam00677 1055530004198 Lumazine binding domain; Region: Lum_binding; pfam00677 1055530004199 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 1055530004200 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1055530004201 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1055530004202 Walker A/P-loop; other site 1055530004203 ATP binding site [chemical binding]; other site 1055530004204 Q-loop/lid; other site 1055530004205 ABC transporter signature motif; other site 1055530004206 Walker B; other site 1055530004207 D-loop; other site 1055530004208 H-loop/switch region; other site 1055530004209 NIL domain; Region: NIL; pfam09383 1055530004210 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 1055530004211 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1055530004212 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 1055530004213 active site 1055530004214 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1055530004215 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 1055530004216 Mg++ binding site [ion binding]; other site 1055530004217 putative catalytic motif [active] 1055530004218 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 1055530004219 active site 1055530004220 hydrophilic channel; other site 1055530004221 dimerization interface [polypeptide binding]; other site 1055530004222 catalytic residues [active] 1055530004223 active site lid [active] 1055530004224 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1055530004225 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 1055530004226 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1055530004227 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 1055530004228 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1055530004229 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1055530004230 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1055530004231 hypothetical protein; Provisional; Region: PRK10236 1055530004232 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 1055530004233 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1055530004234 Initiator Replication protein; Region: Rep_3; pfam01051