-- dump date 20140619_040345 -- class Genbank::misc_feature -- table misc_feature_note -- id note 331635000001 malate dehydrogenase; Provisional; Region: PRK05442 331635000002 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 331635000003 NAD(P) binding site [chemical binding]; other site 331635000004 dimer interface [polypeptide binding]; other site 331635000005 malate binding site [chemical binding]; other site 331635000006 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 331635000007 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 331635000008 active site 331635000009 dimer interface [polypeptide binding]; other site 331635000010 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 331635000011 dimer interface [polypeptide binding]; other site 331635000012 active site 331635000013 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 331635000014 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 331635000015 active site 331635000016 DNA binding site [nucleotide binding] 331635000017 Int/Topo IB signature motif; other site 331635000018 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 331635000019 Tetratricopeptide repeat; Region: TPR_3; pfam07720 331635000020 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 331635000021 S-adenosylmethionine binding site [chemical binding]; other site 331635000022 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 331635000023 LytB protein; Region: LYTB; pfam02401 331635000024 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 331635000025 active site triad [active] 331635000026 Na+/H+ antiporter, NhaD family; Region: NhaD; TIGR00775 331635000027 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 331635000028 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 331635000029 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 331635000030 Sulfate transporter family; Region: Sulfate_transp; pfam00916 331635000031 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 331635000032 fumarate hydratase; Reviewed; Region: fumC; PRK00485 331635000033 Class II fumarases; Region: Fumarase_classII; cd01362 331635000034 active site 331635000035 tetramer interface [polypeptide binding]; other site 331635000036 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 331635000037 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 331635000038 dimer interface [polypeptide binding]; other site 331635000039 conserved gate region; other site 331635000040 ABC-ATPase subunit interface; other site 331635000041 NMT1/THI5 like; Region: NMT1; pfam09084 331635000042 adenylate kinase; Region: adk; TIGR01351 331635000043 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 331635000044 AMP-binding site [chemical binding]; other site 331635000045 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 331635000046 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 331635000047 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 331635000048 methionine aminopeptidase; Provisional; Region: PRK12318 331635000049 SEC-C motif; Region: SEC-C; pfam02810 331635000050 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 331635000051 active site 331635000052 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 331635000053 Protein of unknown function (DUF720); Region: DUF720; pfam05302 331635000054 Protein of unknown function (DUF720); Region: DUF720; pfam05302 331635000055 Protein of unknown function (DUF720); Region: DUF720; pfam05302 331635000056 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 331635000057 nucleoside/Zn binding site; other site 331635000058 dimer interface [polypeptide binding]; other site 331635000059 catalytic motif [active] 331635000060 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 331635000061 16S/18S rRNA binding site [nucleotide binding]; other site 331635000062 S13e-L30e interaction site [polypeptide binding]; other site 331635000063 25S rRNA binding site [nucleotide binding]; other site 331635000064 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 331635000065 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 331635000066 RNase E interface [polypeptide binding]; other site 331635000067 trimer interface [polypeptide binding]; other site 331635000068 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 331635000069 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 331635000070 RNase E interface [polypeptide binding]; other site 331635000071 trimer interface [polypeptide binding]; other site 331635000072 active site 331635000073 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 331635000074 putative nucleic acid binding region [nucleotide binding]; other site 331635000075 G-X-X-G motif; other site 331635000076 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 331635000077 RNA binding site [nucleotide binding]; other site 331635000078 domain interface; other site 331635000079 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 331635000080 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 331635000081 Walker A motif; other site 331635000082 ATP binding site [chemical binding]; other site 331635000083 Walker B motif; other site 331635000084 arginine finger; other site 331635000085 Peptidase family M41; Region: Peptidase_M41; pfam01434 331635000086 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 331635000087 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 331635000088 Ligand Binding Site [chemical binding]; other site 331635000089 Predicted permeases [General function prediction only]; Region: COG0795 331635000090 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 331635000091 Predicted permeases [General function prediction only]; Region: COG0795 331635000092 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 331635000093 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 331635000094 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 331635000095 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 331635000096 dimer interface [polypeptide binding]; other site 331635000097 motif 1; other site 331635000098 active site 331635000099 motif 2; other site 331635000100 motif 3; other site 331635000101 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 331635000102 23S rRNA binding site [nucleotide binding]; other site 331635000103 L21 binding site [polypeptide binding]; other site 331635000104 L13 binding site [polypeptide binding]; other site 331635000105 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 331635000106 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 331635000107 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 331635000108 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 331635000109 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 331635000110 putative RNA binding site [nucleotide binding]; other site 331635000111 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 331635000112 FAD binding domain; Region: FAD_binding_4; pfam01565 331635000113 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 331635000114 Methyltransferase domain; Region: Methyltransf_31; pfam13847 331635000115 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 331635000116 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 331635000117 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 331635000118 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 331635000119 dimer interface [polypeptide binding]; other site 331635000120 putative radical transfer pathway; other site 331635000121 diiron center [ion binding]; other site 331635000122 tyrosyl radical; other site 331635000123 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12365 331635000124 ATP cone domain; Region: ATP-cone; pfam03477 331635000125 ATP cone domain; Region: ATP-cone; pfam03477 331635000126 Class I ribonucleotide reductase; Region: RNR_I; cd01679 331635000127 active site 331635000128 dimer interface [polypeptide binding]; other site 331635000129 catalytic residues [active] 331635000130 effector binding site; other site 331635000131 R2 peptide binding site; other site 331635000132 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 331635000133 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 331635000134 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 331635000135 RmuC family; Region: RmuC; pfam02646 331635000136 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 331635000137 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 331635000138 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331635000139 Peptidase M16C associated; Region: M16C_assoc; pfam08367 331635000140 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331635000141 hypothetical protein; Provisional; Region: PRK08201 331635000142 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 331635000143 metal binding site [ion binding]; metal-binding site 331635000144 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 331635000145 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 331635000146 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 331635000147 protein binding site [polypeptide binding]; other site 331635000148 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 331635000149 protein binding site [polypeptide binding]; other site 331635000150 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 331635000151 CoA binding domain; Region: CoA_binding; smart00881 331635000152 CoA-ligase; Region: Ligase_CoA; pfam00549 331635000153 succinyl-CoA synthetase, beta subunit; Region: sucCoAbeta; TIGR01016 331635000154 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 331635000155 CoA-ligase; Region: Ligase_CoA; pfam00549 331635000156 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 331635000157 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 331635000158 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 331635000159 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 331635000160 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 331635000161 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 331635000162 aromatic amino acid transport protein; Region: araaP; TIGR00837 331635000163 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 331635000164 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 331635000165 glutaminase active site [active] 331635000166 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 331635000167 dimer interface [polypeptide binding]; other site 331635000168 active site 331635000169 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 331635000170 dimer interface [polypeptide binding]; other site 331635000171 active site 331635000172 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 331635000173 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 331635000174 active site 331635000175 substrate binding site [chemical binding]; other site 331635000176 metal binding site [ion binding]; metal-binding site 331635000177 poly(A) polymerase; Region: pcnB; TIGR01942 331635000178 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 331635000179 active site 331635000180 NTP binding site [chemical binding]; other site 331635000181 metal binding triad [ion binding]; metal-binding site 331635000182 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 331635000183 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK01021 331635000184 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 331635000185 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 331635000186 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 331635000187 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 331635000188 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 331635000189 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 331635000190 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635000191 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635000192 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635000193 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 331635000194 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 331635000195 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 331635000196 homodimer interface [polypeptide binding]; other site 331635000197 oligonucleotide binding site [chemical binding]; other site 331635000198 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT; Region: LPLAT_GPAT; cd07985 331635000199 putative G3P-binding pocket; other site 331635000200 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 331635000201 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 331635000202 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331635000203 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331635000204 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 331635000205 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK00650 331635000206 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 331635000207 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 331635000208 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 331635000209 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 331635000210 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 331635000211 Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Region: RpsF; COG0360 331635000212 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 331635000213 putative active site [active] 331635000214 catalytic residue [active] 331635000215 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 331635000216 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 331635000217 5S rRNA interface [nucleotide binding]; other site 331635000218 CTC domain interface [polypeptide binding]; other site 331635000219 L16 interface [polypeptide binding]; other site 331635000220 glycogen synthase; Provisional; Region: glgA; PRK00654 331635000221 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 331635000222 ADP-binding pocket [chemical binding]; other site 331635000223 homodimer interface [polypeptide binding]; other site 331635000224 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 331635000225 glycyl-tRNA synthetase; Provisional; Region: PRK14908 331635000226 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 331635000227 dimer interface [polypeptide binding]; other site 331635000228 motif 1; other site 331635000229 active site 331635000230 motif 2; other site 331635000231 motif 3; other site 331635000232 DNA primase; Validated; Region: dnaG; PRK05667 331635000233 CHC2 zinc finger; Region: zf-CHC2; pfam01807 331635000234 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 331635000235 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 331635000236 active site 331635000237 metal binding site [ion binding]; metal-binding site 331635000238 interdomain interaction site; other site 331635000239 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 331635000240 MutS domain I; Region: MutS_I; pfam01624 331635000241 MutS domain II; Region: MutS_II; pfam05188 331635000242 MutS domain III; Region: MutS_III; pfam05192 331635000243 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 331635000244 Walker A/P-loop; other site 331635000245 ATP binding site [chemical binding]; other site 331635000246 Q-loop/lid; other site 331635000247 ABC transporter signature motif; other site 331635000248 Walker B; other site 331635000249 D-loop; other site 331635000250 H-loop/switch region; other site 331635000251 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 331635000252 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 331635000253 GIY-YIG motif/motif A; other site 331635000254 active site 331635000255 catalytic site [active] 331635000256 putative DNA binding site [nucleotide binding]; other site 331635000257 metal binding site [ion binding]; metal-binding site 331635000258 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 331635000259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 331635000260 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 331635000261 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 331635000262 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 331635000263 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 331635000264 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 331635000265 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 331635000266 active site 331635000267 HIGH motif; other site 331635000268 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 331635000269 KMSKS motif; other site 331635000270 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 331635000271 tRNA binding surface [nucleotide binding]; other site 331635000272 anticodon binding site; other site 331635000273 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 331635000274 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 331635000275 dimer interface [polypeptide binding]; other site 331635000276 putative anticodon binding site; other site 331635000277 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 331635000278 motif 1; other site 331635000279 dimer interface [polypeptide binding]; other site 331635000280 active site 331635000281 motif 2; other site 331635000282 motif 3; other site 331635000283 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 331635000284 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 331635000285 primosome assembly protein PriA; Validated; Region: PRK05580 331635000286 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 331635000287 ATP binding site [chemical binding]; other site 331635000288 putative Mg++ binding site [ion binding]; other site 331635000289 helicase superfamily c-terminal domain; Region: HELICc; smart00490 331635000290 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 331635000291 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 331635000292 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331635000293 catalytic residue [active] 331635000294 long chain fatty acid--[acyl-carrier-protein] ligase; Validated; Region: PRK06334 331635000295 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 331635000296 acyl-activating enzyme (AAE) consensus motif; other site 331635000297 AMP binding site [chemical binding]; other site 331635000298 active site 331635000299 CoA binding site [chemical binding]; other site 331635000300 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 331635000301 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 331635000302 putative acyl-acceptor binding pocket; other site 331635000303 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 331635000304 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 331635000305 active site 331635000306 putative lithium-binding site [ion binding]; other site 331635000307 substrate binding site [chemical binding]; other site 331635000308 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 331635000309 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 331635000310 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 331635000311 NAD binding site [chemical binding]; other site 331635000312 Phe binding site; other site 331635000313 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 331635000314 dimer interface [polypeptide binding]; other site 331635000315 substrate binding site [chemical binding]; other site 331635000316 metal binding sites [ion binding]; metal-binding site 331635000317 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_human_like; cd03428 331635000318 active site 331635000319 Ap4A binding cleft/pocket [chemical binding]; other site 331635000320 P4 phosphate binding site; other site 331635000321 nudix motif; other site 331635000322 putative P2/P3 phosphate binding site [ion binding]; other site 331635000323 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 331635000324 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 331635000325 dimer interface [polypeptide binding]; other site 331635000326 active site 331635000327 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 331635000328 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 331635000329 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 331635000330 hypothetical protein; Provisional; Region: PRK05927 331635000331 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 331635000332 FeS/SAM binding site; other site 331635000333 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 331635000334 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 331635000335 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 331635000336 anti sigma factor interaction site; other site 331635000337 regulatory phosphorylation site [posttranslational modification]; other site 331635000338 Cell division protein FtsQ; Region: FtsQ; pfam03799 331635000339 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 331635000340 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 331635000341 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cd02409 331635000342 G-X-X-G motif; other site 331635000343 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: PRK14573 331635000344 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331635000345 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331635000346 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331635000347 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 331635000348 ATP-grasp domain; Region: ATP-grasp_4; cl17255 331635000349 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 331635000350 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 331635000351 active site 331635000352 homodimer interface [polypeptide binding]; other site 331635000353 cell division protein FtsW; Region: ftsW; TIGR02614 331635000354 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331635000355 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 331635000356 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 331635000357 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 331635000358 NAD binding site [chemical binding]; other site 331635000359 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331635000360 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331635000361 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 331635000362 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 331635000363 Mg++ binding site [ion binding]; other site 331635000364 putative catalytic motif [active] 331635000365 putative substrate binding site [chemical binding]; other site 331635000366 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331635000367 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 331635000368 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331635000369 chaperonin GroL; Region: GroEL; TIGR02348 331635000370 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 331635000371 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 331635000372 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 331635000373 putative active site [active] 331635000374 putative metal binding site [ion binding]; other site 331635000375 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional; Region: PRK11148 331635000376 elongation factor P; Validated; Region: PRK00529 331635000377 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 331635000378 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 331635000379 RNA binding site [nucleotide binding]; other site 331635000380 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 331635000381 RNA binding site [nucleotide binding]; other site 331635000382 AMP nucleosidase, putative; Region: AMN-like; TIGR01721 331635000383 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 331635000384 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 331635000385 TPP-binding site [chemical binding]; other site 331635000386 dimer interface [polypeptide binding]; other site 331635000387 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 331635000388 PYR/PP interface [polypeptide binding]; other site 331635000389 dimer interface [polypeptide binding]; other site 331635000390 TPP binding site [chemical binding]; other site 331635000391 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331635000392 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 331635000393 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 331635000394 motif 1; other site 331635000395 active site 331635000396 motif 2; other site 331635000397 motif 3; other site 331635000398 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 331635000399 DHHA1 domain; Region: DHHA1; pfam02272 331635000400 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 331635000401 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 331635000402 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 331635000403 ATP binding site [chemical binding]; other site 331635000404 putative Mg++ binding site [ion binding]; other site 331635000405 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 331635000406 nucleotide binding region [chemical binding]; other site 331635000407 ATP-binding site [chemical binding]; other site 331635000408 TRCF domain; Region: TRCF; pfam03461 331635000409 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 331635000410 substrate binding site [chemical binding]; other site 331635000411 active site 331635000412 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 331635000413 HemN C-terminal domain; Region: HemN_C; pfam06969 331635000414 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 331635000415 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 331635000416 Tetratricopeptide repeat; Region: TPR_12; pfam13424 331635000417 Histone H1-like protein Hc1; Region: Hc1; pfam07432 331635000418 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 331635000419 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 331635000420 S-adenosylmethionine binding site [chemical binding]; other site 331635000421 Preprotein translocase subunit; Region: YajC; cl00806 331635000422 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 331635000423 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 331635000424 catalytic loop [active] 331635000425 iron binding site [ion binding]; other site 331635000426 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 331635000427 FAD binding pocket [chemical binding]; other site 331635000428 FAD binding motif [chemical binding]; other site 331635000429 phosphate binding motif [ion binding]; other site 331635000430 beta-alpha-beta structure motif; other site 331635000431 NAD binding pocket [chemical binding]; other site 331635000432 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 331635000433 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 331635000434 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 331635000435 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 331635000436 Proteins containing SET domain [General function prediction only]; Region: COG2940 331635000437 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 331635000438 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 331635000439 substrate binding site [chemical binding]; other site 331635000440 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 331635000441 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 331635000442 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 331635000443 homopentamer interface [polypeptide binding]; other site 331635000444 active site 331635000445 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 331635000446 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 331635000447 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 331635000448 dimerization interface [polypeptide binding]; other site 331635000449 active site 331635000450 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 331635000451 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 331635000452 catalytic motif [active] 331635000453 Zn binding site [ion binding]; other site 331635000454 RibD C-terminal domain; Region: RibD_C; cl17279 331635000455 seryl-tRNA synthetase; Provisional; Region: PRK05431 331635000456 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 331635000457 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 331635000458 dimer interface [polypeptide binding]; other site 331635000459 active site 331635000460 motif 1; other site 331635000461 motif 2; other site 331635000462 motif 3; other site 331635000463 CCC1-related family of proteins; Region: CCC1_like; cl00278 331635000464 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 331635000465 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 331635000466 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 331635000467 motif II; other site 331635000468 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 331635000469 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 331635000470 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 331635000471 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 331635000472 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 331635000473 RNA binding surface [nucleotide binding]; other site 331635000474 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 331635000475 active site 331635000476 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 331635000477 catalytic core [active] 331635000478 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 331635000479 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331635000480 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 331635000481 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 331635000482 trimerization site [polypeptide binding]; other site 331635000483 active site 331635000484 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 331635000485 type III secretion system protein; Validated; Region: PRK05934 331635000486 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 331635000487 type III secretion system ATPase; Validated; Region: PRK05922 331635000488 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 331635000489 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 331635000490 Walker A motif; other site 331635000491 ATP binding site [chemical binding]; other site 331635000492 Walker B motif; other site 331635000493 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 331635000494 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 331635000495 substrate binding site; other site 331635000496 dimerization interface; other site 331635000497 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 331635000498 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 331635000499 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 331635000500 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 331635000501 Effector from type III secretion system; Region: Effector_1; pfam04518 331635000502 Effector from type III secretion system; Region: Effector_1; pfam04518 331635000503 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 331635000504 active site 331635000505 substrate-binding site [chemical binding]; other site 331635000506 metal-binding site [ion binding] 331635000507 GTP binding site [chemical binding]; other site 331635000508 rod shape-determining protein MreB; Provisional; Region: PRK13927 331635000509 MreB and similar proteins; Region: MreB_like; cd10225 331635000510 nucleotide binding site [chemical binding]; other site 331635000511 Mg binding site [ion binding]; other site 331635000512 putative protofilament interaction site [polypeptide binding]; other site 331635000513 RodZ interaction site [polypeptide binding]; other site 331635000514 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 331635000515 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 331635000516 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 331635000517 ATP binding site [chemical binding]; other site 331635000518 putative Mg++ binding site [ion binding]; other site 331635000519 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 331635000520 nucleotide binding region [chemical binding]; other site 331635000521 ATP-binding site [chemical binding]; other site 331635000522 trigger factor; Region: tig; TIGR00115 331635000523 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 331635000524 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 331635000525 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 331635000526 oligomer interface [polypeptide binding]; other site 331635000527 active site residues [active] 331635000528 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 331635000529 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 331635000530 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 331635000531 Walker A motif; other site 331635000532 ATP binding site [chemical binding]; other site 331635000533 Walker B motif; other site 331635000534 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 331635000535 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 331635000536 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 331635000537 active site 331635000538 NTP binding site [chemical binding]; other site 331635000539 metal binding triad [ion binding]; metal-binding site 331635000540 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 331635000541 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 331635000542 GTP-binding protein Der; Reviewed; Region: PRK00093 331635000543 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 331635000544 G1 box; other site 331635000545 GTP/Mg2+ binding site [chemical binding]; other site 331635000546 Switch I region; other site 331635000547 G2 box; other site 331635000548 Switch II region; other site 331635000549 G3 box; other site 331635000550 G4 box; other site 331635000551 G5 box; other site 331635000552 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 331635000553 G1 box; other site 331635000554 GTP/Mg2+ binding site [chemical binding]; other site 331635000555 Switch I region; other site 331635000556 G2 box; other site 331635000557 G3 box; other site 331635000558 Switch II region; other site 331635000559 G4 box; other site 331635000560 G5 box; other site 331635000561 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12899 331635000562 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 331635000563 ATP binding site [chemical binding]; other site 331635000564 putative Mg++ binding site [ion binding]; other site 331635000565 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 331635000566 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 331635000567 nucleotide binding region [chemical binding]; other site 331635000568 ATP-binding site [chemical binding]; other site 331635000569 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 331635000570 binding surface 331635000571 TPR motif; other site 331635000572 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 331635000573 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 331635000574 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 331635000575 trmE is a tRNA modification GTPase; Region: trmE; cd04164 331635000576 G1 box; other site 331635000577 GTP/Mg2+ binding site [chemical binding]; other site 331635000578 Switch I region; other site 331635000579 G2 box; other site 331635000580 Switch II region; other site 331635000581 G3 box; other site 331635000582 G4 box; other site 331635000583 G5 box; other site 331635000584 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 331635000585 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 331635000586 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 331635000587 minor groove reading motif; other site 331635000588 helix-hairpin-helix signature motif; other site 331635000589 substrate binding pocket [chemical binding]; other site 331635000590 active site 331635000591 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 331635000592 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 331635000593 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 331635000594 ATP binding site [chemical binding]; other site 331635000595 putative Mg++ binding site [ion binding]; other site 331635000596 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 331635000597 nucleotide binding region [chemical binding]; other site 331635000598 ATP-binding site [chemical binding]; other site 331635000599 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 331635000600 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331635000601 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 331635000602 lipoyl synthase; Provisional; Region: PRK05481 331635000603 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 331635000604 FeS/SAM binding site; other site 331635000605 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 331635000606 type III secretion system protein; Validated; Region: PRK06328 331635000607 Flagellar assembly protein FliH; Region: FliH; pfam02108 331635000608 type III secretion system protein; Reviewed; Region: PRK09617 331635000609 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 331635000610 Protein of unknown function (DUF1494); Region: DUF1494; pfam07379 331635000611 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 331635000612 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 331635000613 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 331635000614 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 331635000615 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 331635000616 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 331635000617 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 331635000618 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 331635000619 Walker A motif; other site 331635000620 ATP binding site [chemical binding]; other site 331635000621 Walker B motif; other site 331635000622 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 331635000623 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331635000624 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331635000625 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 331635000626 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 331635000627 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 331635000628 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 331635000629 active site 331635000630 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 331635000631 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 331635000632 ATP binding site [chemical binding]; other site 331635000633 Mg2+ binding site [ion binding]; other site 331635000634 G-X-G motif; other site 331635000635 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 331635000636 ATP binding site [chemical binding]; other site 331635000637 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 331635000638 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 331635000639 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 331635000640 binding surface 331635000641 TPR motif; other site 331635000642 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 331635000643 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 331635000644 EamA-like transporter family; Region: EamA; pfam00892 331635000645 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 331635000646 EamA-like transporter family; Region: EamA; pfam00892 331635000647 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 331635000648 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 331635000649 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 331635000650 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 331635000651 active site 331635000652 dimer interface [polypeptide binding]; other site 331635000653 motif 1; other site 331635000654 motif 2; other site 331635000655 motif 3; other site 331635000656 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 331635000657 anticodon binding site; other site 331635000658 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 331635000659 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 331635000660 P-loop; other site 331635000661 Magnesium ion binding site [ion binding]; other site 331635000662 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 331635000663 Magnesium ion binding site [ion binding]; other site 331635000664 Uncharacterized protein family (UPF0137); Region: UPF0137; pfam03677 331635000665 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 331635000666 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 331635000667 active site 331635000668 HIGH motif; other site 331635000669 dimer interface [polypeptide binding]; other site 331635000670 KMSKS motif; other site 331635000671 excinuclease ABC subunit B; Provisional; Region: PRK05298 331635000672 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 331635000673 ATP binding site [chemical binding]; other site 331635000674 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 331635000675 nucleotide binding region [chemical binding]; other site 331635000676 ATP-binding site [chemical binding]; other site 331635000677 Ultra-violet resistance protein B; Region: UvrB; pfam12344 331635000678 enolase; Provisional; Region: eno; PRK00077 331635000679 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 331635000680 dimer interface [polypeptide binding]; other site 331635000681 metal binding site [ion binding]; metal-binding site 331635000682 substrate binding pocket [chemical binding]; other site 331635000683 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 331635000684 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 331635000685 dimerization interface [polypeptide binding]; other site 331635000686 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 331635000687 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 331635000688 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 331635000689 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 331635000690 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 331635000691 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 331635000692 L-aspartate oxidase; Provisional; Region: PRK06175 331635000693 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 331635000694 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 331635000695 putative Iron-sulfur protein interface [polypeptide binding]; other site 331635000696 proximal heme binding site [chemical binding]; other site 331635000697 distal heme binding site [chemical binding]; other site 331635000698 putative dimer interface [polypeptide binding]; other site 331635000699 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 331635000700 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 331635000701 active site 331635000702 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 331635000703 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 331635000704 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 331635000705 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 331635000706 DsbD alpha interface [polypeptide binding]; other site 331635000707 catalytic residues [active] 331635000708 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 331635000709 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 331635000710 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 331635000711 translocation protein TolB; Provisional; Region: tolB; PRK01029 331635000712 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 331635000713 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 331635000714 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 331635000715 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 331635000716 ligand binding site [chemical binding]; other site 331635000717 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 331635000718 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331635000719 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 331635000720 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 331635000721 dimer interface [polypeptide binding]; other site 331635000722 decamer (pentamer of dimers) interface [polypeptide binding]; other site 331635000723 catalytic triad [active] 331635000724 peroxidatic and resolving cysteines [active] 331635000725 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 331635000726 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 331635000727 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 331635000728 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 331635000729 active site 331635000730 dimerization interface [polypeptide binding]; other site 331635000731 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 331635000732 ligand binding site [chemical binding]; other site 331635000733 active site 331635000734 UGI interface [polypeptide binding]; other site 331635000735 catalytic site [active] 331635000736 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 331635000737 Part of AAA domain; Region: AAA_19; pfam13245 331635000738 Family description; Region: UvrD_C_2; pfam13538 331635000739 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 331635000740 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 331635000741 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 331635000742 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 331635000743 DNA topoisomerase I/SWI domain fusion protein; Validated; Region: PRK06319 331635000744 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 331635000745 active site 331635000746 interdomain interaction site; other site 331635000747 putative metal-binding site [ion binding]; other site 331635000748 nucleotide binding site [chemical binding]; other site 331635000749 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 331635000750 domain I; other site 331635000751 DNA binding groove [nucleotide binding] 331635000752 phosphate binding site [ion binding]; other site 331635000753 domain II; other site 331635000754 domain III; other site 331635000755 nucleotide binding site [chemical binding]; other site 331635000756 catalytic site [active] 331635000757 domain IV; other site 331635000758 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331635000759 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331635000760 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331635000761 SWIB/MDM2 domain; Region: SWIB; pfam02201 331635000762 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 331635000763 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 331635000764 FMN binding site [chemical binding]; other site 331635000765 active site 331635000766 catalytic residues [active] 331635000767 substrate binding site [chemical binding]; other site 331635000768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 331635000769 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 331635000770 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 331635000771 recombinase A; Provisional; Region: recA; PRK09354 331635000772 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 331635000773 hexamer interface [polypeptide binding]; other site 331635000774 Walker A motif; other site 331635000775 ATP binding site [chemical binding]; other site 331635000776 Walker B motif; other site 331635000777 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 331635000778 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 331635000779 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 331635000780 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 331635000781 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 331635000782 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 331635000783 DNA binding residues [nucleotide binding] 331635000784 Uncharacterized protein family (UPF0242); Region: UPF0242; pfam06785 331635000785 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 331635000786 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 331635000787 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 331635000788 ATP binding site [chemical binding]; other site 331635000789 Family description; Region: UvrD_C_2; pfam13538 331635000790 Protein of unknown function (DUF1347); Region: DUF1347; pfam07079 331635000791 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 331635000792 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 331635000793 DNA binding site [nucleotide binding] 331635000794 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 331635000795 putative trimer interface [polypeptide binding]; other site 331635000796 putative CoA binding site [chemical binding]; other site 331635000797 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 331635000798 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 331635000799 substrate binding pocket [chemical binding]; other site 331635000800 chain length determination region; other site 331635000801 substrate-Mg2+ binding site; other site 331635000802 catalytic residues [active] 331635000803 aspartate-rich region 1; other site 331635000804 active site lid residues [active] 331635000805 aspartate-rich region 2; other site 331635000806 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 331635000807 Thymidylate synthase complementing protein; Region: Thy1; cl03630 331635000808 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_aspartate_rich; cd04823 331635000809 dimer interface [polypeptide binding]; other site 331635000810 allosteric magnesium binding site [ion binding]; other site 331635000811 active site 331635000812 aspartate-rich active site metal binding site; other site 331635000813 Schiff base residues; other site 331635000814 NADH:ubiquinone oxidoreductase, Na(+)-translocating, A subunit; Region: nqrA; TIGR01936 331635000815 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 331635000816 transcript cleavage factor/unknown domain fusion protein; Validated; Region: PRK06330 331635000817 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 331635000818 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 331635000819 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 331635000820 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 331635000821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331635000822 homodimer interface [polypeptide binding]; other site 331635000823 catalytic residue [active] 331635000824 rod shape-determining protein MreC; Provisional; Region: PRK14872 331635000825 rod shape-determining protein MreC; Region: MreC; pfam04085 331635000826 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 331635000827 Family description; Region: UvrD_C_2; pfam13538 331635000828 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 331635000829 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 331635000830 H+ Antiporter protein; Region: 2A0121; TIGR00900 331635000831 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 331635000832 putative substrate translocation pore; other site 331635000833 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 331635000834 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 331635000835 active site residue [active] 331635000836 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 331635000837 ribosomal protein S4, bacterial/organelle type; Region: rpsD_bact; TIGR01017 331635000838 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 331635000839 RNA binding surface [nucleotide binding]; other site 331635000840 endonuclease IV; Provisional; Region: PRK01060 331635000841 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 331635000842 AP (apurinic/apyrimidinic) site pocket; other site 331635000843 DNA interaction; other site 331635000844 Metal-binding active site; metal-binding site 331635000845 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 331635000846 MviN-like protein; Region: MVIN; pfam03023 331635000847 Effector from type III secretion system; Region: Effector_1; pfam04518 331635000848 Effector from type III secretion system; Region: Effector_1; pfam04518 331635000849 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 331635000850 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 331635000851 Walker A/P-loop; other site 331635000852 ATP binding site [chemical binding]; other site 331635000853 Q-loop/lid; other site 331635000854 ABC transporter signature motif; other site 331635000855 Walker B; other site 331635000856 D-loop; other site 331635000857 H-loop/switch region; other site 331635000858 Protein of unknown function (DUF1137); Region: DUF1137; pfam06587 331635000859 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 331635000860 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 331635000861 hypothetical protein; Provisional; Region: PRK01064 331635000862 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 331635000863 G-X-X-G motif; other site 331635000864 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 331635000865 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 331635000866 RNA binding surface [nucleotide binding]; other site 331635000867 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 331635000868 active site 331635000869 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; cl00148 331635000870 CAP-like domain; other site 331635000871 DNA gyrase/topoisomerase IV, subunit A; Region: DNA_topoisoIV; pfam00521 331635000872 active site 331635000873 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 331635000874 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 331635000875 ATP binding site [chemical binding]; other site 331635000876 Mg2+ binding site [ion binding]; other site 331635000877 G-X-G motif; other site 331635000878 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 331635000879 ATP binding site [chemical binding]; other site 331635000880 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 331635000881 active site 331635000882 putative metal-binding site [ion binding]; other site 331635000883 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 331635000884 glutamyl-tRNA reductase; Validated; Region: hemA; PRK00676 331635000885 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 331635000886 NAD(P) binding pocket [chemical binding]; other site 331635000887 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 331635000888 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 331635000889 phosphopeptide binding site; other site 331635000890 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 331635000891 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 331635000892 phosphopeptide binding site; other site 331635000893 BON domain; Region: BON; pfam04972 331635000894 type III secretion system ATPase; Provisional; Region: PRK06315 331635000895 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 331635000896 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 331635000897 Walker A motif/ATP binding site; other site 331635000898 Walker B motif; other site 331635000899 type III secretion system protein; Validated; Region: PRK05933 331635000900 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 331635000901 Protein kinase domain; Region: Pkinase; pfam00069 331635000902 Catalytic domain of Protein Kinases; Region: PKc; cd00180 331635000903 active site 331635000904 ATP binding site [chemical binding]; other site 331635000905 substrate binding site [chemical binding]; other site 331635000906 activation loop (A-loop); other site 331635000907 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 331635000908 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331635000909 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331635000910 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 331635000911 Arginine kinase [Amino acid transport and metabolism]; Region: COG3869 331635000912 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 331635000913 ADP binding site [chemical binding]; other site 331635000914 phosphagen binding site; other site 331635000915 substrate specificity loop; other site 331635000916 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 331635000917 UvrB/uvrC motif; Region: UVR; pfam02151 331635000918 ribosome recycling factor; Reviewed; Region: frr; PRK00083 331635000919 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 331635000920 hinge region; other site 331635000921 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 331635000922 putative nucleotide binding site [chemical binding]; other site 331635000923 uridine monophosphate binding site [chemical binding]; other site 331635000924 homohexameric interface [polypeptide binding]; other site 331635000925 elongation factor Ts; Provisional; Region: tsf; PRK09377 331635000926 Elongation factor TS; Region: EF_TS; pfam00889 331635000927 Elongation factor TS; Region: EF_TS; pfam00889 331635000928 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 331635000929 rRNA interaction site [nucleotide binding]; other site 331635000930 S8 interaction site; other site 331635000931 putative laminin-1 binding site; other site 331635000932 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 331635000933 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 331635000934 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 331635000935 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 331635000936 TPR repeat; Region: TPR_11; pfam13414 331635000937 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 331635000938 binding surface 331635000939 TPR motif; other site 331635000940 TPR repeat; Region: TPR_11; pfam13414 331635000941 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 331635000942 binding surface 331635000943 TPR motif; other site 331635000944 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 331635000945 binding surface 331635000946 TPR repeat; Region: TPR_11; pfam13414 331635000947 TPR motif; other site 331635000948 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 331635000949 putative ABC transporter; Region: ycf24; CHL00085 331635000950 FeS assembly ATPase SufC; Region: sufC; TIGR01978 331635000951 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 331635000952 Walker A/P-loop; other site 331635000953 ATP binding site [chemical binding]; other site 331635000954 Q-loop/lid; other site 331635000955 ABC transporter signature motif; other site 331635000956 Walker B; other site 331635000957 D-loop; other site 331635000958 H-loop/switch region; other site 331635000959 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 331635000960 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 331635000961 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 331635000962 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 331635000963 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331635000964 catalytic residue [active] 331635000965 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 331635000966 putative active site [active] 331635000967 putative metal binding site [ion binding]; other site 331635000968 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 331635000969 ParB-like nuclease domain; Region: ParBc; pfam02195 331635000970 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 331635000971 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 331635000972 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331635000973 Walker A/P-loop; other site 331635000974 ATP binding site [chemical binding]; other site 331635000975 Q-loop/lid; other site 331635000976 ABC transporter signature motif; other site 331635000977 Walker B; other site 331635000978 D-loop; other site 331635000979 H-loop/switch region; other site 331635000980 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331635000981 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 331635000982 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331635000983 Walker A/P-loop; other site 331635000984 ATP binding site [chemical binding]; other site 331635000985 Q-loop/lid; other site 331635000986 ABC transporter signature motif; other site 331635000987 Walker B; other site 331635000988 D-loop; other site 331635000989 H-loop/switch region; other site 331635000990 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331635000991 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 331635000992 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 331635000993 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 331635000994 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 331635000995 Phosphoglycerate kinase; Region: PGK; pfam00162 331635000996 substrate binding site [chemical binding]; other site 331635000997 hinge regions; other site 331635000998 ADP binding site [chemical binding]; other site 331635000999 catalytic site [active] 331635001000 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 331635001001 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 331635001002 S-adenosylmethionine binding site [chemical binding]; other site 331635001003 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 331635001004 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 331635001005 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 331635001006 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; cl00075 331635001007 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 331635001008 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 331635001009 GA-binding protein alpha chain; Region: GABP-alpha; pfam11620 331635001010 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 331635001011 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 331635001012 active site 331635001013 PHP Thumb interface [polypeptide binding]; other site 331635001014 metal binding site [ion binding]; metal-binding site 331635001015 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 331635001016 generic binding surface I; other site 331635001017 generic binding surface II; other site 331635001018 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 331635001019 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 331635001020 putative substrate translocation pore; other site 331635001021 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 331635001022 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 331635001023 dimer interface [polypeptide binding]; other site 331635001024 motif 1; other site 331635001025 active site 331635001026 motif 2; other site 331635001027 motif 3; other site 331635001028 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 331635001029 anticodon binding site; other site 331635001030 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 331635001031 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 331635001032 dimer interface [polypeptide binding]; other site 331635001033 anticodon binding site; other site 331635001034 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 331635001035 homodimer interface [polypeptide binding]; other site 331635001036 motif 1; other site 331635001037 active site 331635001038 motif 2; other site 331635001039 GAD domain; Region: GAD; pfam02938 331635001040 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 331635001041 active site 331635001042 motif 3; other site 331635001043 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 331635001044 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 331635001045 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 331635001046 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 331635001047 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 331635001048 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 331635001049 catalytic residues [active] 331635001050 Protein of unknown function (DUF2709); Region: DUF2709; pfam10915 331635001051 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; pfam02367 331635001052 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 331635001053 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 331635001054 active site 331635001055 catalytic site [active] 331635001056 substrate binding site [chemical binding]; other site 331635001057 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 331635001058 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 331635001059 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 331635001060 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 331635001061 putative active site [active] 331635001062 catalytic triad [active] 331635001063 putative dimer interface [polypeptide binding]; other site 331635001064 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 331635001065 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 331635001066 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 331635001067 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 331635001068 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 331635001069 active site 331635001070 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 331635001071 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 331635001072 putative active site [active] 331635001073 substrate binding site [chemical binding]; other site 331635001074 putative cosubstrate binding site; other site 331635001075 catalytic site [active] 331635001076 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 331635001077 substrate binding site [chemical binding]; other site 331635001078 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 331635001079 Ribosomal protein L4 [Translation, ribosomal structure and biogenesis]; Region: RplD; COG0088 331635001080 Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]; Region: RplW; COG0089 331635001081 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 331635001082 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 331635001083 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 331635001084 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 331635001085 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 331635001086 putative translocon binding site; other site 331635001087 protein-rRNA interface [nucleotide binding]; other site 331635001088 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 331635001089 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 331635001090 G-X-X-G motif; other site 331635001091 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 331635001092 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 331635001093 23S rRNA interface [nucleotide binding]; other site 331635001094 5S rRNA interface [nucleotide binding]; other site 331635001095 putative antibiotic binding site [chemical binding]; other site 331635001096 L25 interface [polypeptide binding]; other site 331635001097 L27 interface [polypeptide binding]; other site 331635001098 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 331635001099 23S rRNA interface [nucleotide binding]; other site 331635001100 putative translocon interaction site; other site 331635001101 signal recognition particle (SRP54) interaction site; other site 331635001102 L23 interface [polypeptide binding]; other site 331635001103 trigger factor interaction site; other site 331635001104 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 331635001105 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 331635001106 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 331635001107 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 331635001108 RNA binding site [nucleotide binding]; other site 331635001109 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 331635001110 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 331635001111 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 331635001112 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 331635001113 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 331635001114 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 331635001115 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 331635001116 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 331635001117 5S rRNA interface [nucleotide binding]; other site 331635001118 L27 interface [polypeptide binding]; other site 331635001119 23S rRNA interface [nucleotide binding]; other site 331635001120 L5 interface [polypeptide binding]; other site 331635001121 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 331635001122 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 331635001123 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 331635001124 ribosomal protein L15, bacterial/organelle; Region: rplO_bact; TIGR01071 331635001125 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 331635001126 SecY translocase; Region: SecY; pfam00344 331635001127 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 331635001128 30S ribosomal protein S13; Region: bact_S13; TIGR03631 331635001129 30S ribosomal protein S11; Validated; Region: PRK05309 331635001130 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 331635001131 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 331635001132 alphaNTD - beta interaction site [polypeptide binding]; other site 331635001133 alphaNTD homodimer interface [polypeptide binding]; other site 331635001134 alphaNTD - beta' interaction site [polypeptide binding]; other site 331635001135 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 331635001136 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 331635001137 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 331635001138 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 331635001139 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 331635001140 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 331635001141 active site 331635001142 putative DNA-binding cleft [nucleotide binding]; other site 331635001143 dimer interface [polypeptide binding]; other site 331635001144 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 331635001145 RuvA N terminal domain; Region: RuvA_N; pfam01330 331635001146 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 331635001147 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 331635001148 active site 331635001149 multimer interface [polypeptide binding]; other site 331635001150 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 331635001151 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 331635001152 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 331635001153 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 331635001154 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 331635001155 replicative DNA helicase; Provisional; Region: PRK06321 331635001156 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 331635001157 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 331635001158 Walker A motif; other site 331635001159 ATP binding site [chemical binding]; other site 331635001160 Walker B motif; other site 331635001161 DNA binding loops [nucleotide binding] 331635001162 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 331635001163 TLC ATP/ADP transporter; Region: TLC; pfam03219 331635001164 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 331635001165 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 331635001166 tandem repeat interface [polypeptide binding]; other site 331635001167 oligomer interface [polypeptide binding]; other site 331635001168 active site residues [active] 331635001169 DNA polymerase I; Provisional; Region: PRK05755 331635001170 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 331635001171 active site 331635001172 metal binding site 1 [ion binding]; metal-binding site 331635001173 putative 5' ssDNA interaction site; other site 331635001174 metal binding site 3; metal-binding site 331635001175 metal binding site 2 [ion binding]; metal-binding site 331635001176 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 331635001177 putative DNA binding site [nucleotide binding]; other site 331635001178 putative metal binding site [ion binding]; other site 331635001179 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 331635001180 active site 331635001181 substrate binding site [chemical binding]; other site 331635001182 catalytic site [active] 331635001183 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 331635001184 active site 331635001185 DNA binding site [nucleotide binding] 331635001186 catalytic site [active] 331635001187 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 331635001188 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 331635001189 CoA-binding site [chemical binding]; other site 331635001190 ATP-binding [chemical binding]; other site 331635001191 transcription termination factor Rho; Provisional; Region: rho; PRK09376 331635001192 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 331635001193 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 331635001194 RNA binding site [nucleotide binding]; other site 331635001195 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 331635001196 multimer interface [polypeptide binding]; other site 331635001197 Walker A motif; other site 331635001198 ATP binding site [chemical binding]; other site 331635001199 Walker B motif; other site 331635001200 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331635001201 active site 331635001202 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 331635001203 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 331635001204 active site 331635001205 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 331635001206 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 331635001207 dimer interface [polypeptide binding]; other site 331635001208 N-terminal domain interface [polypeptide binding]; other site 331635001209 sulfate 1 binding site; other site 331635001210 Predicted phosphohydrolase [General function prediction only]; Region: COG1768 331635001211 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 331635001212 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 331635001213 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 331635001214 S-adenosylmethionine binding site [chemical binding]; other site 331635001215 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 331635001216 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 331635001217 substrate binding pocket [chemical binding]; other site 331635001218 membrane-bound complex binding site; other site 331635001219 hinge residues; other site 331635001220 ferrochelatase; Reviewed; Region: hemH; PRK00035 331635001221 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 331635001222 C-terminal domain interface [polypeptide binding]; other site 331635001223 active site 331635001224 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 331635001225 active site 331635001226 N-terminal domain interface [polypeptide binding]; other site 331635001227 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 331635001228 TPR motif; other site 331635001229 binding surface 331635001230 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 331635001231 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 331635001232 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 331635001233 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 331635001234 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 331635001235 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 331635001236 dimer interface [polypeptide binding]; other site 331635001237 conserved gate region; other site 331635001238 ABC-ATPase subunit interface; other site 331635001239 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 331635001240 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 331635001241 dimer interface [polypeptide binding]; other site 331635001242 conserved gate region; other site 331635001243 putative PBP binding loops; other site 331635001244 ABC-ATPase subunit interface; other site 331635001245 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 331635001246 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 331635001247 DNA binding site [nucleotide binding] 331635001248 active site 331635001249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 331635001250 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 331635001251 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 331635001252 putative tRNA-binding site [nucleotide binding]; other site 331635001253 B3/4 domain; Region: B3_4; pfam03483 331635001254 tRNA synthetase B5 domain; Region: B5; pfam03484 331635001255 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 331635001256 dimer interface [polypeptide binding]; other site 331635001257 motif 1; other site 331635001258 motif 3; other site 331635001259 motif 2; other site 331635001260 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 331635001261 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331635001262 Haemolytic domain; Region: Haemolytic; cl00506 331635001263 Uncharacterized conserved protein [Function unknown]; Region: COG1723 331635001264 Recombination protein O N terminal; Region: RecO_N; pfam11967 331635001265 Recombination protein O C terminal; Region: RecO_C; pfam02565 331635001266 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 331635001267 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 331635001268 30S subunit binding site; other site 331635001269 Response regulator receiver domain; Region: Response_reg; pfam00072 331635001270 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 331635001271 active site 331635001272 phosphorylation site [posttranslational modification] 331635001273 intermolecular recognition site; other site 331635001274 dimerization interface [polypeptide binding]; other site 331635001275 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 331635001276 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 331635001277 Walker A motif; other site 331635001278 ATP binding site [chemical binding]; other site 331635001279 Walker B motif; other site 331635001280 arginine finger; other site 331635001281 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 331635001282 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 331635001283 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 331635001284 putative active site [active] 331635001285 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 331635001286 dimer interface [polypeptide binding]; other site 331635001287 phosphorylation site [posttranslational modification] 331635001288 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 331635001289 ATP binding site [chemical binding]; other site 331635001290 Mg2+ binding site [ion binding]; other site 331635001291 G-X-G motif; other site 331635001292 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 331635001293 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 331635001294 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 331635001295 dimerization interface 3.5A [polypeptide binding]; other site 331635001296 active site 331635001297 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 331635001298 substrate binding site; other site 331635001299 dimer interface; other site 331635001300 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 331635001301 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 331635001302 putative active site [active] 331635001303 putative metal binding site [ion binding]; other site 331635001304 SWI complex, BAF60b domains; Region: SWIB; smart00151 331635001305 peptide chain release factor 2; Validated; Region: prfB; PRK00578 331635001306 This domain is found in peptide chain release factors; Region: PCRF; smart00937 331635001307 RF-1 domain; Region: RF-1; pfam00472 331635001308 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 331635001309 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331635001310 Coenzyme A binding pocket [chemical binding]; other site 331635001311 Protein of unknown function DUF45; Region: DUF45; cl00636 331635001312 DNA-binding regulatory protein, YebC/PmpR family; Region: TIGR01033 331635001313 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 331635001314 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 331635001315 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 331635001316 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 331635001317 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 331635001318 hinge; other site 331635001319 active site 331635001320 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 331635001321 arginine-tRNA ligase; Region: PLN02286 331635001322 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 331635001323 active site 331635001324 HIGH motif; other site 331635001325 KMSK motif region; other site 331635001326 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 331635001327 tRNA binding surface [nucleotide binding]; other site 331635001328 anticodon binding site; other site 331635001329 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 331635001330 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 331635001331 putative acyl-acceptor binding pocket; other site 331635001332 cytidylate kinase; Provisional; Region: cmk; PRK00023 331635001333 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 331635001334 CMP-binding site; other site 331635001335 The sites determining sugar specificity; other site 331635001336 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 331635001337 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 331635001338 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; cl00230 331635001339 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 331635001340 catalytic residue [active] 331635001341 putative FPP diphosphate binding site; other site 331635001342 putative FPP binding hydrophobic cleft; other site 331635001343 dimer interface [polypeptide binding]; other site 331635001344 putative IPP diphosphate binding site; other site 331635001345 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK12911 331635001346 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 331635001347 Protein export membrane protein; Region: SecD_SecF; pfam02355 331635001348 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 331635001349 DHH family; Region: DHH; pfam01368 331635001350 DHHA1 domain; Region: DHHA1; pfam02272 331635001351 Chlamydia CHLPS protein (DUF818); Region: DUF818; pfam05677 331635001352 Chlamydia CHLPS protein (DUF818); Region: DUF818; pfam05677 331635001353 Helix-turn-helix domain; Region: HTH_17; pfam12728 331635001354 Helix-turn-helix domain; Region: HTH_17; pfam12728 331635001355 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 331635001356 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 331635001357 HIGH motif; other site 331635001358 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 331635001359 active site 331635001360 KMSKS motif; other site 331635001361 Chlamydia cysteine-rich outer membrane protein 3; Region: Chlam_OMP3; pfam03503 331635001362 Chlamydia cysteine-rich outer membrane protein 6; Region: Chlam_OMP6; pfam03504 331635001363 Domain of unknown function DUF11; Region: DUF11; pfam01345 331635001364 Domain of unknown function DUF11; Region: DUF11; pfam01345 331635001365 Chlamydia 15 kDa cysteine-rich outer membrane protein (CRPA); Region: CRPA; pfam05745 331635001366 Opioid growth factor receptor (OGFr) conserved region; Region: OGFr_N; pfam04664 331635001367 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 331635001368 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 331635001369 protein binding site [polypeptide binding]; other site 331635001370 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 331635001371 Catalytic dyad [active] 331635001372 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 331635001373 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 331635001374 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 331635001375 S17 interaction site [polypeptide binding]; other site 331635001376 S8 interaction site; other site 331635001377 16S rRNA interaction site [nucleotide binding]; other site 331635001378 streptomycin interaction site [chemical binding]; other site 331635001379 23S rRNA interaction site [nucleotide binding]; other site 331635001380 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 331635001381 30S ribosomal protein S7; Validated; Region: PRK05302 331635001382 elongation factor G; Reviewed; Region: PRK12739 331635001383 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 331635001384 G1 box; other site 331635001385 putative GEF interaction site [polypeptide binding]; other site 331635001386 GTP/Mg2+ binding site [chemical binding]; other site 331635001387 Switch I region; other site 331635001388 G2 box; other site 331635001389 G3 box; other site 331635001390 Switch II region; other site 331635001391 G4 box; other site 331635001392 G5 box; other site 331635001393 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 331635001394 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 331635001395 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 331635001396 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 331635001397 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 331635001398 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 331635001399 FAD binding pocket [chemical binding]; other site 331635001400 conserved FAD binding motif [chemical binding]; other site 331635001401 phosphate binding motif [ion binding]; other site 331635001402 beta-alpha-beta structure motif; other site 331635001403 NAD binding pocket [chemical binding]; other site 331635001404 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 331635001405 homotrimer interaction site [polypeptide binding]; other site 331635001406 zinc binding site [ion binding]; other site 331635001407 CDP-binding sites; other site 331635001408 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 331635001409 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 331635001410 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 331635001411 Predicted GTPase [General function prediction only]; Region: Obg; COG0536 331635001412 GTP1/OBG; Region: GTP1_OBG; pfam01018 331635001413 Obg GTPase; Region: Obg; cd01898 331635001414 G1 box; other site 331635001415 GTP/Mg2+ binding site [chemical binding]; other site 331635001416 Switch I region; other site 331635001417 G2 box; other site 331635001418 G3 box; other site 331635001419 Switch II region; other site 331635001420 G4 box; other site 331635001421 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 331635001422 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 331635001423 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 331635001424 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 331635001425 putative metal binding residues [ion binding]; other site 331635001426 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001427 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001428 YtxH-like protein; Region: YtxH; pfam12732 331635001429 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 331635001430 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 331635001431 Lipoprotein signal peptidase [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: LspA; COG0597 331635001432 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 331635001433 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 331635001434 ATP cone domain; Region: ATP-cone; pfam03477 331635001435 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 331635001436 Lumazine binding domain; Region: Lum_binding; pfam00677 331635001437 Lumazine binding domain; Region: Lum_binding; pfam00677 331635001438 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 331635001439 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 331635001440 S-adenosylmethionine binding site [chemical binding]; other site 331635001441 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 331635001442 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 331635001443 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 331635001444 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 331635001445 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 331635001446 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 331635001447 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 331635001448 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 331635001449 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 331635001450 E3 interaction surface; other site 331635001451 lipoyl attachment site [posttranslational modification]; other site 331635001452 e3 binding domain; Region: E3_binding; pfam02817 331635001453 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 331635001454 KpsF/GutQ family protein; Region: kpsF; TIGR00393 331635001455 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 331635001456 putative active site [active] 331635001457 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 331635001458 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 331635001459 Putative zinc ribbon domain; Region: DUF164; pfam02591 331635001460 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 331635001461 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 331635001462 active site 331635001463 serine hydroxymethyltransferase; Provisional; Region: PRK13580 331635001464 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 331635001465 dimer interface [polypeptide binding]; other site 331635001466 active site 331635001467 glycine-pyridoxal phosphate binding site [chemical binding]; other site 331635001468 folate binding site [chemical binding]; other site 331635001469 Clp protease; Region: CLP_protease; pfam00574 331635001470 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 331635001471 oligomer interface [polypeptide binding]; other site 331635001472 active site residues [active] 331635001473 diaminopimelate epimerase; Region: DapF; TIGR00652 331635001474 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 331635001475 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 331635001476 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 331635001477 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 331635001478 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 331635001479 S-adenosylmethionine binding site [chemical binding]; other site 331635001480 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 331635001481 hypothetical protein; Provisional; Region: PRK05926 331635001482 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 331635001483 FeS/SAM binding site; other site 331635001484 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 331635001485 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 331635001486 anti sigma factor interaction site; other site 331635001487 regulatory phosphorylation site [posttranslational modification]; other site 331635001488 FOG: CBS domain [General function prediction only]; Region: COG0517 331635001489 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 331635001490 Transporter associated domain; Region: CorC_HlyC; smart01091 331635001491 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 331635001492 Chlam_Verruc_Plancto small basic protein; Region: Chlam_Ver_rRNA; TIGR04137 331635001493 Uncharacterized conserved protein [Function unknown]; Region: COG2928 331635001494 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 331635001495 active site 331635001496 DNA binding site [nucleotide binding] 331635001497 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 331635001498 RNB domain; Region: RNB; pfam00773 331635001499 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 331635001500 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 331635001501 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 331635001502 nucleotide binding site [chemical binding]; other site 331635001503 NEF interaction site [polypeptide binding]; other site 331635001504 SBD interface [polypeptide binding]; other site 331635001505 GrpE; Region: GrpE; pfam01025 331635001506 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 331635001507 dimer interface [polypeptide binding]; other site 331635001508 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 331635001509 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 331635001510 Transcriptional regulator of heat shock gene [Transcription]; Region: HrcA; COG1420 331635001511 prolyl-tRNA synthetase; Provisional; Region: PRK09194 331635001512 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 331635001513 motif 1; other site 331635001514 dimer interface [polypeptide binding]; other site 331635001515 active site 331635001516 motif 2; other site 331635001517 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 331635001518 putative deacylase active site [active] 331635001519 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 331635001520 active site 331635001521 motif 3; other site 331635001522 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 331635001523 anticodon binding site; other site 331635001524 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cl00630 331635001525 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 331635001526 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 331635001527 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 331635001528 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 331635001529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331635001530 homodimer interface [polypeptide binding]; other site 331635001531 catalytic residue [active] 331635001532 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 331635001533 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 331635001534 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 331635001535 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 331635001536 nucleotide binding site/active site [active] 331635001537 HIT family signature motif; other site 331635001538 catalytic residue [active] 331635001539 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 331635001540 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 331635001541 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 331635001542 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 331635001543 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 331635001544 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 331635001545 substrate binding pocket [chemical binding]; other site 331635001546 membrane-bound complex binding site; other site 331635001547 hinge residues; other site 331635001548 CCC1-related family of proteins; Region: CCC1_like; cl00278 331635001549 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 331635001550 putative hydrolase; Provisional; Region: PRK02113 331635001551 GTPases [General function prediction only]; Region: HflX; COG2262 331635001552 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 331635001553 HflX GTPase family; Region: HflX; cd01878 331635001554 G1 box; other site 331635001555 GTP/Mg2+ binding site [chemical binding]; other site 331635001556 Switch I region; other site 331635001557 G2 box; other site 331635001558 G3 box; other site 331635001559 Switch II region; other site 331635001560 G4 box; other site 331635001561 G5 box; other site 331635001562 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 331635001563 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 331635001564 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 331635001565 FeS/SAM binding site; other site 331635001566 glycogen branching enzyme; Provisional; Region: PRK05402 331635001567 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 331635001568 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 331635001569 active site 331635001570 catalytic site [active] 331635001571 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 331635001572 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001573 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001574 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001575 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001576 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001577 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001578 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001579 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001580 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331635001581 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331635001582 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001583 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001584 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331635001585 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001586 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001587 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331635001588 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001589 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001590 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331635001591 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001592 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001593 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001594 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001595 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001596 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001597 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331635001598 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331635001599 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635001600 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635001601 Domain of unknown function (DUF378); Region: DUF378; cl00943 331635001602 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 331635001603 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 331635001604 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 331635001605 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 331635001606 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 331635001607 GatB domain; Region: GatB_Yqey; smart00845 331635001608 TLC ATP/ADP transporter; Region: TLC; cl03940 331635001609 ribonuclease HIII; Provisional; Region: PRK00996 331635001610 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 331635001611 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 331635001612 RNA/DNA hybrid binding site [nucleotide binding]; other site 331635001613 active site 331635001614 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 331635001615 Helix-turn-helix domain; Region: HTH_25; pfam13413 331635001616 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 331635001617 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 331635001618 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 331635001619 catalytic residues [active] 331635001620 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 331635001621 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 331635001622 S-adenosylmethionine binding site [chemical binding]; other site 331635001623 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 331635001624 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 331635001625 TPP-binding site; other site 331635001626 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 331635001627 PYR/PP interface [polypeptide binding]; other site 331635001628 dimer interface [polypeptide binding]; other site 331635001629 TPP binding site [chemical binding]; other site 331635001630 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331635001631 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 331635001632 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 331635001633 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 331635001634 generic binding surface II; other site 331635001635 generic binding surface I; other site 331635001636 triosephosphate isomerase; Provisional; Region: PRK14567 331635001637 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 331635001638 substrate binding site [chemical binding]; other site 331635001639 dimer interface [polypeptide binding]; other site 331635001640 catalytic triad [active] 331635001641 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 331635001642 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 331635001643 active site 331635001644 catalytic residues [active] 331635001645 metal binding site [ion binding]; metal-binding site 331635001646 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 331635001647 Maf-like protein; Region: Maf; pfam02545 331635001648 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 331635001649 active site 331635001650 dimer interface [polypeptide binding]; other site 331635001651 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 331635001652 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 331635001653 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 331635001654 ABC transporter; Region: ABC_tran_2; pfam12848 331635001655 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 331635001656 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 331635001657 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 331635001658 active site 331635001659 DNA binding site [nucleotide binding] 331635001660 Int/Topo IB signature motif; other site 331635001661 ribonuclease Z; Region: RNase_Z; TIGR02651 331635001662 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 331635001663 Found in ATP-dependent protease La (LON); Region: LON; smart00464 331635001664 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 331635001665 Walker A motif; other site 331635001666 ATP binding site [chemical binding]; other site 331635001667 Walker B motif; other site 331635001668 arginine finger; other site 331635001669 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 331635001670 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 331635001671 Glycoprotease family; Region: Peptidase_M22; pfam00814 331635001672 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 331635001673 chaperone protein DnaJ; Provisional; Region: PRK14284 331635001674 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 331635001675 HSP70 interaction site [polypeptide binding]; other site 331635001676 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 331635001677 Zn binding sites [ion binding]; other site 331635001678 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 331635001679 dimer interface [polypeptide binding]; other site 331635001680 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 331635001681 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 331635001682 tetramer interface [polypeptide binding]; other site 331635001683 TPP-binding site [chemical binding]; other site 331635001684 heterodimer interface [polypeptide binding]; other site 331635001685 phosphorylation loop region [posttranslational modification] 331635001686 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 331635001687 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 331635001688 alpha subunit interface [polypeptide binding]; other site 331635001689 TPP binding site [chemical binding]; other site 331635001690 heterodimer interface [polypeptide binding]; other site 331635001691 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331635001692 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 331635001693 Competence protein; Region: Competence; cl00471 331635001694 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 331635001695 dimerization domain swap beta strand [polypeptide binding]; other site 331635001696 regulatory protein interface [polypeptide binding]; other site 331635001697 active site 331635001698 regulatory phosphorylation site [posttranslational modification]; other site 331635001699 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 331635001700 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 331635001701 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 331635001702 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 331635001703 hypothetical protein; Validated; Region: PRK00153 331635001704 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06305 331635001705 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 331635001706 Walker A motif; other site 331635001707 ATP binding site [chemical binding]; other site 331635001708 Walker B motif; other site 331635001709 arginine finger; other site 331635001710 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 331635001711 porphobilinogen deaminase; Provisional; Region: PRK01066 331635001712 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; cl17708 331635001713 domain interfaces; other site 331635001714 active site 331635001715 DNA repair protein RadA; Provisional; Region: PRK11823 331635001716 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 331635001717 Walker A motif/ATP binding site; other site 331635001718 ATP binding site [chemical binding]; other site 331635001719 Walker B motif; other site 331635001720 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 331635001721 ribonuclease III; Reviewed; Region: rnc; PRK00102 331635001722 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 331635001723 dimerization interface [polypeptide binding]; other site 331635001724 active site 331635001725 metal binding site [ion binding]; metal-binding site 331635001726 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 331635001727 dsRNA binding site [nucleotide binding]; other site 331635001728 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 331635001729 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 331635001730 active site 331635001731 substrate binding site [chemical binding]; other site 331635001732 metal binding site [ion binding]; metal-binding site 331635001733 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 331635001734 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 331635001735 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 331635001736 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 331635001737 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 331635001738 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 331635001739 trimer interface [polypeptide binding]; other site 331635001740 active site 331635001741 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 331635001742 active site 331635001743 phosphorylation site [posttranslational modification] 331635001744 Helix-turn-helix domain; Region: HTH_17; pfam12728 331635001745 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 331635001746 active site 331635001747 phosphorylation site [posttranslational modification] 331635001748 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 331635001749 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 331635001750 Ligand Binding Site [chemical binding]; other site 331635001751 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 331635001752 Clp amino terminal domain; Region: Clp_N; pfam02861 331635001753 Clp amino terminal domain; Region: Clp_N; pfam02861 331635001754 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 331635001755 Walker A motif; other site 331635001756 ATP binding site [chemical binding]; other site 331635001757 Walker B motif; other site 331635001758 arginine finger; other site 331635001759 UvrB/uvrC motif; Region: UVR; pfam02151 331635001760 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 331635001761 Walker A motif; other site 331635001762 ATP binding site [chemical binding]; other site 331635001763 Walker B motif; other site 331635001764 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 331635001765 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 331635001766 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331635001767 PLD-like domain; Region: PLDc_2; pfam13091 331635001768 putative active site [active] 331635001769 catalytic site [active] 331635001770 Chlamydial GcvH-like protein upstream region protein; Region: near_not_gcvH; TIGR03076 331635001771 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 331635001772 lipoyl attachment site [posttranslational modification]; other site 331635001773 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK01061 331635001774 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrD [Energy production and conversion]; Region: NqrD; COG1347 331635001775 FMN-binding domain; Region: FMN_bind; cl01081 331635001776 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 331635001777 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK01024 331635001778 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 331635001779 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 331635001780 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 331635001781 DnaA N-terminal domain; Region: DnaA_N; pfam11638 331635001782 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 331635001783 Walker A motif; other site 331635001784 ATP binding site [chemical binding]; other site 331635001785 Walker B motif; other site 331635001786 arginine finger; other site 331635001787 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 331635001788 DnaA box-binding interface [nucleotide binding]; other site 331635001789 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 331635001790 TPR motif; other site 331635001791 binding surface 331635001792 Tetratricopeptide repeat; Region: TPR_9; pfam13371 331635001793 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 331635001794 MraW methylase family; Region: Methyltransf_5; cl17771 331635001795 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 331635001796 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 331635001797 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 331635001798 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 331635001799 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331635001800 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331635001801 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331635001802 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 331635001803 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 331635001804 active site 331635001805 metal binding site [ion binding]; metal-binding site 331635001806 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 331635001807 IHF - DNA interface [nucleotide binding]; other site 331635001808 IHF dimer interface [polypeptide binding]; other site 331635001809 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 331635001810 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; pfam03255 331635001811 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 331635001812 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 331635001813 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635001814 Walker A/P-loop; other site 331635001815 ATP binding site [chemical binding]; other site 331635001816 Q-loop/lid; other site 331635001817 ABC transporter signature motif; other site 331635001818 Walker B; other site 331635001819 D-loop; other site 331635001820 H-loop/switch region; other site 331635001821 nucleosidase; Provisional; Region: PRK05634 331635001822 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 331635001823 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 331635001824 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 331635001825 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 331635001826 active site 331635001827 catalytic site [active] 331635001828 substrate binding site [chemical binding]; other site 331635001829 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 331635001830 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 331635001831 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 331635001832 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 331635001833 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 331635001834 active site 331635001835 motif I; other site 331635001836 motif II; other site 331635001837 enoyl-[acyl-carrier-protein] reductase; Region: PLN02730 331635001838 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 331635001839 NAD binding site [chemical binding]; other site 331635001840 homotetramer interface [polypeptide binding]; other site 331635001841 homodimer interface [polypeptide binding]; other site 331635001842 substrate binding site [chemical binding]; other site 331635001843 active site 331635001844 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 331635001845 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 331635001846 RNA binding surface [nucleotide binding]; other site 331635001847 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 331635001848 active site 331635001849 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 331635001850 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 331635001851 minor groove reading motif; other site 331635001852 helix-hairpin-helix signature motif; other site 331635001853 substrate binding pocket [chemical binding]; other site 331635001854 active site 331635001855 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 331635001856 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 331635001857 DNA binding and oxoG recognition site [nucleotide binding] 331635001858 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 331635001859 homodimer interface [polypeptide binding]; other site 331635001860 metal binding site [ion binding]; metal-binding site 331635001861 CAAX protease self-immunity; Region: Abi; pfam02517 331635001862 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 331635001863 active site 331635001864 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 331635001865 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 331635001866 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331635001867 catalytic residue [active] 331635001868 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 331635001869 Domain of unknown function DUF21; Region: DUF21; pfam01595 331635001870 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 331635001871 Transporter associated domain; Region: CorC_HlyC; smart01091 331635001872 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 331635001873 Domain of unknown function DUF21; Region: DUF21; pfam01595 331635001874 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 331635001875 Transporter associated domain; Region: CorC_HlyC; smart01091 331635001876 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 331635001877 trimer interface [polypeptide binding]; other site 331635001878 active site 331635001879 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 331635001880 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 331635001881 Walker A motif; other site 331635001882 ATP binding site [chemical binding]; other site 331635001883 Walker B motif; other site 331635001884 arginine finger; other site 331635001885 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 331635001886 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 331635001887 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 331635001888 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 331635001889 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 331635001890 active site 331635001891 catalytic site [active] 331635001892 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 331635001893 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 331635001894 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 331635001895 ssDNA binding site [nucleotide binding]; other site 331635001896 dimer interface [polypeptide binding]; other site 331635001897 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 331635001898 tetramer (dimer of dimers) interface [polypeptide binding]; other site 331635001899 multifunctional aminopeptidase A; Provisional; Region: PRK00913 331635001900 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 331635001901 interface (dimer of trimers) [polypeptide binding]; other site 331635001902 Substrate-binding/catalytic site; other site 331635001903 Zn-binding sites [ion binding]; other site 331635001904 hypothetical protein; Provisional; Region: PRK05907 331635001905 Predicted methyltransferases [General function prediction only]; Region: COG0313 331635001906 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 331635001907 putative SAM binding site [chemical binding]; other site 331635001908 homodimer interface [polypeptide binding]; other site 331635001909 coproporphyrinogen III oxidase; Provisional; Region: PRK06294 331635001910 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 331635001911 FeS/SAM binding site; other site 331635001912 2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, and related enzymes [Energy production and conversion]; Region: SucA; COG0567 331635001913 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 331635001914 TPP-binding site [chemical binding]; other site 331635001915 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 331635001916 dimer interface [polypeptide binding]; other site 331635001917 PYR/PP interface [polypeptide binding]; other site 331635001918 TPP binding site [chemical binding]; other site 331635001919 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 331635001920 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 331635001921 E3 interaction surface; other site 331635001922 lipoyl attachment site [posttranslational modification]; other site 331635001923 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 331635001924 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 331635001925 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 331635001926 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 331635001927 GcpE protein; Region: GcpE; pfam04551 331635001928 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cd02749 331635001929 ADP-ribose binding site [chemical binding]; other site 331635001930 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 331635001931 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 331635001932 catalytic loop [active] 331635001933 iron binding site [ion binding]; other site 331635001934 type III secretion system protein; Validated; Region: PRK05910 331635001935 FHIPEP family; Region: FHIPEP; pfam00771 331635001936 RNA polymerase sigma factor sigma-28; Reviewed; Region: PRK05911 331635001937 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 331635001938 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 331635001939 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 331635001940 DNA binding residues [nucleotide binding] 331635001941 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 331635001942 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 331635001943 active site 331635001944 HIGH motif; other site 331635001945 dimer interface [polypeptide binding]; other site 331635001946 KMSKS motif; other site 331635001947 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 331635001948 RNA binding surface [nucleotide binding]; other site 331635001949 6-phosphogluconate dehydrogenase (decarboxylating); Region: gnd; TIGR00873 331635001950 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 331635001951 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 331635001952 GTP-binding protein LepA; Provisional; Region: PRK05433 331635001953 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 331635001954 G1 box; other site 331635001955 putative GEF interaction site [polypeptide binding]; other site 331635001956 GTP/Mg2+ binding site [chemical binding]; other site 331635001957 Switch I region; other site 331635001958 G2 box; other site 331635001959 G3 box; other site 331635001960 Switch II region; other site 331635001961 G4 box; other site 331635001962 G5 box; other site 331635001963 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 331635001964 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 331635001965 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 331635001966 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331635001967 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331635001968 ADP/ATP carrier protein family; Region: AAA; TIGR00769 331635001969 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 331635001970 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 331635001971 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 331635001972 intersubunit interface [polypeptide binding]; other site 331635001973 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 331635001974 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 331635001975 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 331635001976 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 331635001977 ABC-ATPase subunit interface; other site 331635001978 dimer interface [polypeptide binding]; other site 331635001979 putative PBP binding regions; other site 331635001980 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 331635001981 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 331635001982 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 331635001983 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 331635001984 ABC-ATPase subunit interface; other site 331635001985 dimer interface [polypeptide binding]; other site 331635001986 putative PBP binding regions; other site 331635001987 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 331635001988 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 331635001989 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 331635001990 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 331635001991 RIP metalloprotease RseP; Region: TIGR00054 331635001992 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 331635001993 active site 331635001994 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 331635001995 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 331635001996 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 331635001997 putative substrate binding region [chemical binding]; other site 331635001998 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 331635001999 Putative serine esterase (DUF676); Region: DUF676; pfam05057 331635002000 recombination protein F; Reviewed; Region: recF; PRK00064 331635002001 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635002002 Walker A/P-loop; other site 331635002003 ATP binding site [chemical binding]; other site 331635002004 Q-loop/lid; other site 331635002005 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635002006 ABC transporter signature motif; other site 331635002007 Walker B; other site 331635002008 D-loop; other site 331635002009 H-loop/switch region; other site 331635002010 DNA polymerase III subunit beta; Validated; Region: PRK05643 331635002011 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 331635002012 putative DNA binding surface [nucleotide binding]; other site 331635002013 dimer interface [polypeptide binding]; other site 331635002014 beta-clamp/clamp loader binding surface; other site 331635002015 beta-clamp/translesion DNA polymerase binding surface; other site 331635002016 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 331635002017 SmpB-tmRNA interface; other site 331635002018 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 331635002019 ApbE family; Region: ApbE; pfam02424 331635002020 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14181 331635002021 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 331635002022 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 331635002023 homodimer interface [polypeptide binding]; other site 331635002024 NADP binding site [chemical binding]; other site 331635002025 substrate binding site [chemical binding]; other site 331635002026 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331635002027 PLD-like domain; Region: PLDc_2; pfam13091 331635002028 putative active site [active] 331635002029 catalytic site [active] 331635002030 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 331635002031 PLD-like domain; Region: PLDc_2; pfam13091 331635002032 putative active site [active] 331635002033 catalytic site [active] 331635002034 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 331635002035 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 331635002036 4-alpha-glucanotransferase; Region: Glyco_hydro_77; pfam02446 331635002037 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 331635002038 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 331635002039 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 331635002040 FHIPEP family; Region: FHIPEP; pfam00771 331635002041 type III secretion system protein; Validated; Region: PRK06298 331635002042 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 331635002043 GTP-binding protein YchF; Reviewed; Region: PRK09601 331635002044 YchF GTPase; Region: YchF; cd01900 331635002045 G1 box; other site 331635002046 GTP/Mg2+ binding site [chemical binding]; other site 331635002047 Switch I region; other site 331635002048 G2 box; other site 331635002049 Switch II region; other site 331635002050 G3 box; other site 331635002051 G4 box; other site 331635002052 G5 box; other site 331635002053 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 331635002054 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 331635002055 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 331635002056 active site 331635002057 Riboflavin kinase; Region: Flavokinase; smart00904 331635002058 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00989 331635002059 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 331635002060 RNA binding site [nucleotide binding]; other site 331635002061 active site 331635002062 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 331635002063 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 331635002064 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 331635002065 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 331635002066 G1 box; other site 331635002067 putative GEF interaction site [polypeptide binding]; other site 331635002068 GTP/Mg2+ binding site [chemical binding]; other site 331635002069 Switch I region; other site 331635002070 G2 box; other site 331635002071 G3 box; other site 331635002072 Switch II region; other site 331635002073 G4 box; other site 331635002074 G5 box; other site 331635002075 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 331635002076 Translation-initiation factor 2; Region: IF-2; pfam11987 331635002077 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 331635002078 transcription termination factor NusA; Region: NusA; TIGR01953 331635002079 NusA N-terminal domain; Region: NusA_N; pfam08529 331635002080 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 331635002081 RNA binding site [nucleotide binding]; other site 331635002082 homodimer interface [polypeptide binding]; other site 331635002083 NusA-like KH domain; Region: KH_5; pfam13184 331635002084 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 331635002085 G-X-X-G motif; other site 331635002086 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 331635002087 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 331635002088 RNA binding site [nucleotide binding]; other site 331635002089 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 331635002090 RNA binding site [nucleotide binding]; other site 331635002091 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 331635002092 RNA binding site [nucleotide binding]; other site 331635002093 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 331635002094 RNA binding site [nucleotide binding]; other site 331635002095 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 331635002096 RNA binding site [nucleotide binding]; other site 331635002097 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 331635002098 RNA binding site [nucleotide binding]; other site 331635002099 domain interface; other site 331635002100 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 331635002101 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 331635002102 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331635002103 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 331635002104 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 331635002105 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 331635002106 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 331635002107 chromosomal replication initiation protein; Provisional; Region: PRK12422 331635002108 DnaA N-terminal domain; Region: DnaA_N; pfam11638 331635002109 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 331635002110 Walker A motif; other site 331635002111 ATP binding site [chemical binding]; other site 331635002112 Walker B motif; other site 331635002113 arginine finger; other site 331635002114 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 331635002115 DnaA box-binding interface [nucleotide binding]; other site 331635002116 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 331635002117 homodimer interface [polypeptide binding]; other site 331635002118 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 331635002119 active site pocket [active] 331635002120 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 331635002121 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 331635002122 E3 interaction surface; other site 331635002123 lipoyl attachment site [posttranslational modification]; other site 331635002124 e3 binding domain; Region: E3_binding; pfam02817 331635002125 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 331635002126 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 331635002127 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 331635002128 alpha subunit interface [polypeptide binding]; other site 331635002129 TPP binding site [chemical binding]; other site 331635002130 heterodimer interface [polypeptide binding]; other site 331635002131 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331635002132 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 331635002133 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 331635002134 tetramer interface [polypeptide binding]; other site 331635002135 TPP-binding site [chemical binding]; other site 331635002136 heterodimer interface [polypeptide binding]; other site 331635002137 phosphorylation loop region [posttranslational modification] 331635002138 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 331635002139 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 331635002140 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 331635002141 trimer interface [polypeptide binding]; other site 331635002142 active site 331635002143 UDP-GlcNAc binding site [chemical binding]; other site 331635002144 lipid binding site [chemical binding]; lipid-binding site 331635002145 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 331635002146 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 331635002147 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 331635002148 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 331635002149 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 331635002150 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 331635002151 Surface antigen; Region: Bac_surface_Ag; pfam01103 331635002152 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 331635002153 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 331635002154 putative active site [active] 331635002155 putative metal-binding site [ion binding]; other site 331635002156 tetramer interface [polypeptide binding]; other site 331635002157 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 331635002158 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 331635002159 dimer interface [polypeptide binding]; other site 331635002160 active site 331635002161 CoA binding pocket [chemical binding]; other site 331635002162 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 331635002163 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 331635002164 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 331635002165 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 331635002166 NAD(P) binding site [chemical binding]; other site 331635002167 homotetramer interface [polypeptide binding]; other site 331635002168 homodimer interface [polypeptide binding]; other site 331635002169 active site 331635002170 acyl carrier protein; Provisional; Region: acpP; PRK00982 331635002171 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 331635002172 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 331635002173 ligand binding site [chemical binding]; other site 331635002174 flexible hinge region; other site 331635002175 TLC ATP/ADP transporter; Region: TLC; cl03940 331635002176 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 331635002177 Na2 binding site [ion binding]; other site 331635002178 putative substrate binding site 1 [chemical binding]; other site 331635002179 Na binding site 1 [ion binding]; other site 331635002180 putative substrate binding site 2 [chemical binding]; other site 331635002181 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 331635002182 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 331635002183 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 331635002184 MgtE intracellular N domain; Region: MgtE_N; pfam03448 331635002185 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 331635002186 Divalent cation transporter; Region: MgtE; pfam01769 331635002187 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 331635002188 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 331635002189 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 331635002190 putative active site; other site 331635002191 catalytic residue [active] 331635002192 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 331635002193 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 331635002194 Walker A/P-loop; other site 331635002195 ATP binding site [chemical binding]; other site 331635002196 Q-loop/lid; other site 331635002197 ABC transporter signature motif; other site 331635002198 Walker B; other site 331635002199 D-loop; other site 331635002200 H-loop/switch region; other site 331635002201 NIL domain; Region: NIL; pfam09383 331635002202 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 331635002203 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 331635002204 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 331635002205 Protein of unknown function (DUF721); Region: DUF721; pfam05258 331635002206 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 331635002207 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 331635002208 ATP binding site [chemical binding]; other site 331635002209 Mg2+ binding site [ion binding]; other site 331635002210 G-X-G motif; other site 331635002211 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 331635002212 anchoring element; other site 331635002213 dimer interface [polypeptide binding]; other site 331635002214 ATP binding site [chemical binding]; other site 331635002215 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 331635002216 active site 331635002217 putative metal-binding site [ion binding]; other site 331635002218 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 331635002219 DNA gyrase, A subunit; Region: gyrA; TIGR01063 331635002220 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 331635002221 CAP-like domain; other site 331635002222 active site 331635002223 primary dimer interface [polypeptide binding]; other site 331635002224 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331635002225 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331635002226 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331635002227 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331635002228 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331635002229 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331635002230 thymidylate kinase; Validated; Region: tmk; PRK00698 331635002231 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 331635002232 TMP-binding site; other site 331635002233 ATP-binding site [chemical binding]; other site 331635002234 DNA polymerase III subunit delta'; Validated; Region: PRK05917 331635002235 DNA polymerase III subunit delta'; Validated; Region: PRK08485 331635002236 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 331635002237 Serine hydrolase (FSH1); Region: FSH1; pfam03959 331635002238 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 331635002239 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 331635002240 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 331635002241 active site 331635002242 IncA protein; Region: IncA; pfam04156 331635002243 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 331635002244 UbiA prenyltransferase family; Region: UbiA; pfam01040 331635002245 aromatic acid decarboxylase; Validated; Region: PRK05920 331635002246 Flavoprotein; Region: Flavoprotein; pfam02441 331635002247 Uncharacterized conserved protein [Function unknown]; Region: COG1284 331635002248 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 331635002249 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 331635002250 Predicted acid phosphatase [General function prediction only]; Region: SurE; COG0496 331635002251 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 331635002252 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 331635002253 Ligand Binding Site [chemical binding]; other site 331635002254 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 331635002255 SEC-C motif; Region: SEC-C; pfam02810 331635002256 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 331635002257 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 331635002258 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 331635002259 FeS/SAM binding site; other site 331635002260 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 331635002261 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 331635002262 FtsX-like permease family; Region: FtsX; pfam02687 331635002263 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 331635002264 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 331635002265 Walker A/P-loop; other site 331635002266 ATP binding site [chemical binding]; other site 331635002267 Q-loop/lid; other site 331635002268 ABC transporter signature motif; other site 331635002269 Walker B; other site 331635002270 D-loop; other site 331635002271 H-loop/switch region; other site 331635002272 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 331635002273 23S rRNA interface [nucleotide binding]; other site 331635002274 L3 interface [polypeptide binding]; other site 331635002275 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 331635002276 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 331635002277 NlpC/P60 family; Region: NLPC_P60; cl17555 331635002278 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 331635002279 adenylate kinase; Reviewed; Region: adk; PRK00279 331635002280 AMP-binding site [chemical binding]; other site 331635002281 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 331635002282 WW-domain ligand protein; Region: WWbp; pfam10349 331635002283 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 331635002284 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 331635002285 putative active site [active] 331635002286 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 331635002287 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 331635002288 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 331635002289 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 331635002290 CTP synthetase; Validated; Region: pyrG; PRK05380 331635002291 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 331635002292 Catalytic site [active] 331635002293 active site 331635002294 UTP binding site [chemical binding]; other site 331635002295 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 331635002296 active site 331635002297 putative oxyanion hole; other site 331635002298 catalytic triad [active] 331635002299 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 331635002300 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 331635002301 Ligand binding site; other site 331635002302 oligomer interface; other site 331635002303 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 331635002304 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 331635002305 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635002306 Walker A/P-loop; other site 331635002307 ATP binding site [chemical binding]; other site 331635002308 Q-loop/lid; other site 331635002309 ABC transporter signature motif; other site 331635002310 Walker B; other site 331635002311 D-loop; other site 331635002312 H-loop/switch region; other site 331635002313 Vitamin K epoxide reductase (VKOR) family; Region: VKOR; cl01729 331635002314 putative active site [active] 331635002315 redox center [active] 331635002316 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 331635002317 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 331635002318 catalytic residues [active] 331635002319 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 331635002320 queuine tRNA-ribosyltransferase; Provisional; Region: PRK01008 331635002321 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 331635002322 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 331635002323 Family of unknown function (DUF648); Region: DUF648; pfam04890 331635002324 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 331635002325 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 331635002326 active site 331635002327 GMP synthase; Reviewed; Region: guaA; PRK00074 331635002328 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 331635002329 AMP/PPi binding site [chemical binding]; other site 331635002330 candidate oxyanion hole; other site 331635002331 catalytic triad [active] 331635002332 potential glutamine specificity residues [chemical binding]; other site 331635002333 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 331635002334 ATP Binding subdomain [chemical binding]; other site 331635002335 Ligand Binding sites [chemical binding]; other site 331635002336 Dimerization subdomain; other site 331635002337 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 331635002338 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 331635002339 active site 331635002340 MAC/Perforin domain; Region: MACPF; cl02616 331635002341 Domain in ryanodine and inositol trisphosphate receptors and protein O-mannosyltransferases; Region: MIR; smart00472 331635002342 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331635002343 PLD-like domain; Region: PLDc_2; pfam13091 331635002344 putative active site [active] 331635002345 catalytic site [active] 331635002346 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 331635002347 PLD-like domain; Region: PLDc_2; pfam13091 331635002348 putative active site [active] 331635002349 catalytic site [active] 331635002350 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331635002351 PLD-like domain; Region: PLDc_2; pfam13091 331635002352 putative active site [active] 331635002353 catalytic site [active] 331635002354 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 331635002355 PLD-like domain; Region: PLDc_2; pfam13091 331635002356 putative active site [active] 331635002357 catalytic site [active] 331635002358 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 331635002359 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 331635002360 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 331635002361 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 331635002362 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 331635002363 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331635002364 PLD-like domain; Region: PLDc_2; pfam13091 331635002365 putative active site [active] 331635002366 catalytic site [active] 331635002367 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 331635002368 PLD-like domain; Region: PLDc_2; pfam13091 331635002369 putative active site [active] 331635002370 catalytic site [active] 331635002371 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331635002372 PLD-like domain; Region: PLDc_2; pfam13091 331635002373 putative active site [active] 331635002374 catalytic site [active] 331635002375 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 331635002376 PLD-like domain; Region: PLDc_2; pfam13091 331635002377 putative active site [active] 331635002378 catalytic site [active] 331635002379 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 331635002380 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 331635002381 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 331635002382 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 331635002383 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 331635002384 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 331635002385 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331635002386 PLD-like domain; Region: PLDc_2; pfam13091 331635002387 putative active site [active] 331635002388 catalytic site [active] 331635002389 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 331635002390 PLD-like domain; Region: PLDc_2; pfam13091 331635002391 putative active site [active] 331635002392 catalytic site [active] 331635002393 Family of unknown function (DUF648); Region: DUF648; pfam04890 331635002394 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 331635002395 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 331635002396 ATP-grasp domain; Region: ATP-grasp_4; cl17255 331635002397 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 331635002398 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 331635002399 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 331635002400 carboxyltransferase (CT) interaction site; other site 331635002401 biotinylation site [posttranslational modification]; other site 331635002402 elongation factor P; Provisional; Region: PRK12426 331635002403 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 331635002404 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 331635002405 RNA binding site [nucleotide binding]; other site 331635002406 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 331635002407 RNA binding site [nucleotide binding]; other site 331635002408 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 331635002409 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 331635002410 substrate binding site [chemical binding]; other site 331635002411 hexamer interface [polypeptide binding]; other site 331635002412 metal binding site [ion binding]; metal-binding site 331635002413 IncA protein; Region: IncA; pfam04156 331635002414 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 331635002415 Methyltransferase domain; Region: Methyltransf_31; pfam13847 331635002416 S-adenosylmethionine binding site [chemical binding]; other site 331635002417 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 331635002418 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 331635002419 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635002420 Walker A/P-loop; other site 331635002421 ATP binding site [chemical binding]; other site 331635002422 Q-loop/lid; other site 331635002423 ABC transporter signature motif; other site 331635002424 Walker B; other site 331635002425 D-loop; other site 331635002426 H-loop/switch region; other site 331635002427 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 331635002428 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 331635002429 dimer interface [polypeptide binding]; other site 331635002430 conserved gate region; other site 331635002431 putative PBP binding loops; other site 331635002432 ABC-ATPase subunit interface; other site 331635002433 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 331635002434 arginine repressor; Region: argR_whole; TIGR01529 331635002435 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 331635002436 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 331635002437 tRNA threonylcarbamoyl adenosine modification protein YgjD; Region: T6A_YgjD; TIGR03723 331635002438 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 331635002439 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331635002440 peptide binding site [polypeptide binding]; other site 331635002441 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 331635002442 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331635002443 peptide binding site [polypeptide binding]; other site 331635002444 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 331635002445 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 331635002446 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 331635002447 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331635002448 peptide binding site [polypeptide binding]; other site 331635002449 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 331635002450 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 331635002451 dimer interface [polypeptide binding]; other site 331635002452 conserved gate region; other site 331635002453 putative PBP binding loops; other site 331635002454 ABC-ATPase subunit interface; other site 331635002455 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 331635002456 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 331635002457 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 331635002458 dimer interface [polypeptide binding]; other site 331635002459 conserved gate region; other site 331635002460 putative PBP binding loops; other site 331635002461 ABC-ATPase subunit interface; other site 331635002462 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331635002463 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 331635002464 Walker A/P-loop; other site 331635002465 ATP binding site [chemical binding]; other site 331635002466 Q-loop/lid; other site 331635002467 ABC transporter signature motif; other site 331635002468 Walker B; other site 331635002469 D-loop; other site 331635002470 H-loop/switch region; other site 331635002471 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331635002472 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 331635002473 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331635002474 Walker A/P-loop; other site 331635002475 ATP binding site [chemical binding]; other site 331635002476 Q-loop/lid; other site 331635002477 ABC transporter signature motif; other site 331635002478 Walker B; other site 331635002479 D-loop; other site 331635002480 H-loop/switch region; other site 331635002481 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 331635002482 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 331635002483 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 331635002484 transmembrane helices; other site 331635002485 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 331635002486 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 331635002487 active site 331635002488 ADP/pyrophosphate binding site [chemical binding]; other site 331635002489 dimerization interface [polypeptide binding]; other site 331635002490 allosteric effector site; other site 331635002491 fructose-1,6-bisphosphate binding site; other site 331635002492 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 331635002493 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 331635002494 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 331635002495 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 331635002496 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 331635002497 active site 331635002498 ADP/pyrophosphate binding site [chemical binding]; other site 331635002499 dimerization interface [polypeptide binding]; other site 331635002500 allosteric effector site; other site 331635002501 fructose-1,6-bisphosphate binding site; other site 331635002502 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 331635002503 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 331635002504 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 331635002505 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 331635002506 HIGH motif; other site 331635002507 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 331635002508 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 331635002509 active site 331635002510 KMSKS motif; other site 331635002511 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 331635002512 tRNA binding surface [nucleotide binding]; other site 331635002513 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 331635002514 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 331635002515 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 331635002516 TrkA-N domain; Region: TrkA_N; pfam02254 331635002517 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 331635002518 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 331635002519 nucleotide binding pocket [chemical binding]; other site 331635002520 K-X-D-G motif; other site 331635002521 catalytic site [active] 331635002522 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 331635002523 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 331635002524 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 331635002525 Dimer interface [polypeptide binding]; other site 331635002526 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 331635002527 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 331635002528 active site 331635002529 ATP binding site [chemical binding]; other site 331635002530 Uncharacterized conserved protein [Function unknown]; Region: COG1262 331635002531 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 331635002532 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 331635002533 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 331635002534 TPR motif; other site 331635002535 binding surface 331635002536 TPR repeat; Region: TPR_11; pfam13414 331635002537 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 331635002538 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 331635002539 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 331635002540 Clp amino terminal domain; Region: Clp_N; pfam02861 331635002541 Clp amino terminal domain; Region: Clp_N; pfam02861 331635002542 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 331635002543 Walker A motif; other site 331635002544 ATP binding site [chemical binding]; other site 331635002545 Walker B motif; other site 331635002546 arginine finger; other site 331635002547 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 331635002548 Walker A motif; other site 331635002549 ATP binding site [chemical binding]; other site 331635002550 Walker B motif; other site 331635002551 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 331635002552 mce related protein; Region: MCE; pfam02470 331635002553 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 331635002554 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635002555 Walker A/P-loop; other site 331635002556 ATP binding site [chemical binding]; other site 331635002557 Q-loop/lid; other site 331635002558 ABC transporter signature motif; other site 331635002559 Walker B; other site 331635002560 D-loop; other site 331635002561 H-loop/switch region; other site 331635002562 Permease; Region: Permease; pfam02405 331635002563 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00615 331635002564 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 331635002565 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331635002566 catalytic residue [active] 331635002567 hypothetical protein; Validated; Region: PRK00228 331635002568 Bifunctional nuclease; Region: DNase-RNase; cl00553 331635002569 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 331635002570 tetramer (dimer of dimers) interface [polypeptide binding]; other site 331635002571 active site 331635002572 dimer interface [polypeptide binding]; other site 331635002573 Uncharacterized conserved protein [Function unknown]; Region: COG0327 331635002574 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 331635002575 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 331635002576 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 331635002577 active site 331635002578 Zn binding site [ion binding]; other site 331635002579 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 331635002580 oligomerisation interface [polypeptide binding]; other site 331635002581 mobile loop; other site 331635002582 roof hairpin; other site 331635002583 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 331635002584 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 331635002585 ring oligomerisation interface [polypeptide binding]; other site 331635002586 ATP/Mg binding site [chemical binding]; other site 331635002587 stacking interactions; other site 331635002588 hinge regions; other site 331635002589 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 331635002590 conserved cys residue [active] 331635002591 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 331635002592 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 331635002593 AAA domain; Region: AAA_30; pfam13604 331635002594 Family description; Region: UvrD_C_2; pfam13538 331635002595 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 331635002596 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 331635002597 active site 331635002598 HIGH motif; other site 331635002599 KMSKS motif; other site 331635002600 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 331635002601 tRNA binding surface [nucleotide binding]; other site 331635002602 anticodon binding site; other site 331635002603 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 331635002604 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 331635002605 catalytic site [active] 331635002606 G-X2-G-X-G-K; other site 331635002607 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 331635002608 RNA/DNA hybrid binding site [nucleotide binding]; other site 331635002609 active site 331635002610 ribosomal protein L19, bacterial type; Region: rplS_bact; TIGR01024 331635002611 tRNA (guanine-N(1)-)-methyltransferase/unknown domain fusion protein; Reviewed; Region: trmD; PRK01037 331635002612 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 331635002613 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 331635002614 active site 331635002615 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14522 331635002616 signal recognition particle protein; Provisional; Region: PRK10867 331635002617 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 331635002618 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 331635002619 P loop; other site 331635002620 GTP binding site [chemical binding]; other site 331635002621 Signal peptide binding domain; Region: SRP_SPB; pfam02978 331635002622 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 331635002623 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 331635002624 S-adenosylmethionine binding site [chemical binding]; other site 331635002625 peptide chain release factor 1; Validated; Region: prfA; PRK00591 331635002626 PCRF domain; Region: PCRF; pfam03462 331635002627 RF-1 domain; Region: RF-1; pfam00472 331635002628 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 331635002629 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 331635002630 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 331635002631 Catalytic site [active] 331635002632 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 331635002633 aminoacyl-tRNA ligase; Region: PLN02882 331635002634 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 331635002635 HIGH motif; other site 331635002636 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 331635002637 active site 331635002638 KMSKS motif; other site 331635002639 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 331635002640 tRNA binding surface [nucleotide binding]; other site 331635002641 anticodon binding site; other site 331635002642 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 331635002643 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 331635002644 putative active site [active] 331635002645 PhoH-like protein; Region: PhoH; pfam02562 331635002646 Bacterial SH3 domain homologues; Region: SH3b; smart00287 331635002647 Bacterial SH3 domain; Region: SH3_3; pfam08239 331635002648 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 331635002649 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 331635002650 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 331635002651 Uncharacterized conserved protein [Function unknown]; Region: COG1624 331635002652 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 331635002653 lipid A biosynthesis lauroyl acyltransferase; Provisional; Region: PRK05906 331635002654 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 331635002655 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 331635002656 putative acyl-acceptor binding pocket; other site 331635002657 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 331635002658 pyruvate kinase; Region: pyruv_kin; TIGR01064 331635002659 domain interfaces; other site 331635002660 active site 331635002661 excinuclease ABC subunit A; Provisional; Region: PRK00635 331635002662 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635002663 Walker A/P-loop; other site 331635002664 ATP binding site [chemical binding]; other site 331635002665 Q-loop/lid; other site 331635002666 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 331635002667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635002668 Walker A/P-loop; other site 331635002669 ATP binding site [chemical binding]; other site 331635002670 Q-loop/lid; other site 331635002671 ABC transporter signature motif; other site 331635002672 Walker B; other site 331635002673 D-loop; other site 331635002674 H-loop/switch region; other site 331635002675 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635002676 Walker A/P-loop; other site 331635002677 ATP binding site [chemical binding]; other site 331635002678 Q-loop/lid; other site 331635002679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635002680 ABC transporter signature motif; other site 331635002681 Walker B; other site 331635002682 D-loop; other site 331635002683 H-loop/switch region; other site 331635002684 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635002685 Walker A/P-loop; other site 331635002686 ATP binding site [chemical binding]; other site 331635002687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331635002688 ABC transporter signature motif; other site 331635002689 Walker B; other site 331635002690 D-loop; other site 331635002691 H-loop/switch region; other site 331635002692 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 331635002693 Catalytic domain of Protein Kinases; Region: PKc; cd00180 331635002694 active site 331635002695 ATP binding site [chemical binding]; other site 331635002696 substrate binding site [chemical binding]; other site 331635002697 activation loop (A-loop); other site 331635002698 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 331635002699 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 331635002700 active site 331635002701 HIGH motif; other site 331635002702 nucleotide binding site [chemical binding]; other site 331635002703 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 331635002704 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 331635002705 active site 331635002706 KMSKS motif; other site 331635002707 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 331635002708 tRNA binding surface [nucleotide binding]; other site 331635002709 anticodon binding site; other site 331635002710 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 331635002711 V-type ATP synthase subunit I; Validated; Region: PRK05771 331635002712 V-type ATP synthase subunit D; Provisional; Region: PRK02195 331635002713 V-type ATP synthase subunit B; Provisional; Region: PRK02118 331635002714 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 331635002715 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 331635002716 Walker A motif homologous position; other site 331635002717 Walker B motif; other site 331635002718 V-type ATP synthase subunit A; Provisional; Region: PRK04192 331635002719 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 331635002720 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 331635002721 Walker A motif/ATP binding site; other site 331635002722 Walker B motif; other site 331635002723 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 331635002724 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 331635002725 V-type ATP synthase subunit E; Provisional; Region: PRK01005 331635002726 V-type ATP synthase subunit E; Provisional; Region: PRK01558 331635002727 transaldolase-like protein; Provisional; Region: PTZ00411 331635002728 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 331635002729 active site 331635002730 dimer interface [polypeptide binding]; other site 331635002731 catalytic residue [active] 331635002732 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 331635002733 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 331635002734 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 331635002735 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 331635002736 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 331635002737 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 331635002738 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 331635002739 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 331635002740 DNA binding site [nucleotide binding] 331635002741 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 331635002742 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 331635002743 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 331635002744 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 331635002745 DNA-directed RNA polymerase, beta subunit; Region: rpoB; TIGR02013 331635002746 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 331635002747 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 331635002748 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 331635002749 RPB3 interaction site [polypeptide binding]; other site 331635002750 RPB1 interaction site [polypeptide binding]; other site 331635002751 RPB11 interaction site [polypeptide binding]; other site 331635002752 RPB10 interaction site [polypeptide binding]; other site 331635002753 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 331635002754 L11 interface [polypeptide binding]; other site 331635002755 putative EF-Tu interaction site [polypeptide binding]; other site 331635002756 putative EF-G interaction site [polypeptide binding]; other site 331635002757 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 331635002758 23S rRNA interface [nucleotide binding]; other site 331635002759 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 331635002760 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 331635002761 mRNA/rRNA interface [nucleotide binding]; other site 331635002762 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 331635002763 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 331635002764 23S rRNA interface [nucleotide binding]; other site 331635002765 L7/L12 interface [polypeptide binding]; other site 331635002766 putative thiostrepton binding site; other site 331635002767 L25 interface [polypeptide binding]; other site 331635002768 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 331635002769 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 331635002770 putative homodimer interface [polypeptide binding]; other site 331635002771 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 331635002772 heterodimer interface [polypeptide binding]; other site 331635002773 homodimer interface [polypeptide binding]; other site 331635002774 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 331635002775 elongation factor Tu; Reviewed; Region: PRK12735 331635002776 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 331635002777 G1 box; other site 331635002778 GEF interaction site [polypeptide binding]; other site 331635002779 GTP/Mg2+ binding site [chemical binding]; other site 331635002780 Switch I region; other site 331635002781 G2 box; other site 331635002782 G3 box; other site 331635002783 Switch II region; other site 331635002784 G4 box; other site 331635002785 G5 box; other site 331635002786 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 331635002787 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 331635002788 Antibiotic Binding Site [chemical binding]; other site 331635002789 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 331635002790 rRNA binding site [nucleotide binding]; other site 331635002791 predicted 30S ribosome binding site; other site 331635002792 Fe-S metabolism associated domain; Region: SufE; cl00951 331635002793 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 331635002794 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 331635002795 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331635002796 active site 331635002797 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 331635002798 kynureninase; Region: kynureninase; TIGR01814 331635002799 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331635002800 catalytic residue [active] 331635002801 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 331635002802 substrate binding site [chemical binding]; other site 331635002803 active site 331635002804 catalytic residues [active] 331635002805 heterodimer interface [polypeptide binding]; other site 331635002806 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 331635002807 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 331635002808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331635002809 catalytic residue [active] 331635002810 phosphoribosylanthranilate isomerase; Region: PLN02363 331635002811 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 331635002812 active site 331635002813 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 331635002814 active site 331635002815 ribulose/triose binding site [chemical binding]; other site 331635002816 phosphate binding site [ion binding]; other site 331635002817 substrate (anthranilate) binding pocket [chemical binding]; other site 331635002818 product (indole) binding pocket [chemical binding]; other site 331635002819 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 331635002820 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 331635002821 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 331635002822 Trp repressor protein; Region: Trp_repressor; cl17266 331635002823 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331635002824 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331635002825 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331635002826 Class I aldolases; Region: Aldolase_Class_I; cl17187 331635002827 dihydrodipicolinate synthase; Region: dapA; TIGR00674 331635002828 catalytic residue [active] 331635002829 aspartate kinase; Provisional; Region: PRK05925 331635002830 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 331635002831 putative catalytic residues [active] 331635002832 nucleotide binding site [chemical binding]; other site 331635002833 aspartate binding site [chemical binding]; other site 331635002834 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 331635002835 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 331635002836 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 331635002837 dihydrodipicolinate reductase; Provisional; Region: PRK00048 331635002838 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 331635002839 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 331635002840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331635002841 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 331635002842 NAD(P) binding site [chemical binding]; other site 331635002843 active site 331635002844 biotin synthase; Region: bioB; TIGR00433 331635002845 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 331635002846 FeS/SAM binding site; other site 331635002847 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 331635002848 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 331635002849 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 331635002850 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331635002851 catalytic residue [active] 331635002852 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 331635002853 AAA domain; Region: AAA_26; pfam13500 331635002854 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 331635002855 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 331635002856 inhibitor-cofactor binding pocket; inhibition site 331635002857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331635002858 catalytic residue [active] 331635002859 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 331635002860 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 331635002861 hinge; other site 331635002862 active site 331635002863 shikimate kinase; Provisional; Region: PRK00625 331635002864 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 331635002865 ADP binding site [chemical binding]; other site 331635002866 magnesium binding site [ion binding]; other site 331635002867 putative shikimate binding site; other site 331635002868 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 331635002869 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 331635002870 Tetramer interface [polypeptide binding]; other site 331635002871 active site 331635002872 FMN-binding site [chemical binding]; other site 331635002873 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 331635002874 active site 331635002875 dimer interface [polypeptide binding]; other site 331635002876 metal binding site [ion binding]; metal-binding site 331635002877 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase protein; Reviewed; Region: aroDE; PRK09310 331635002878 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 331635002879 active site 331635002880 catalytic residue [active] 331635002881 dimer interface [polypeptide binding]; other site 331635002882 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 331635002883 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 331635002884 shikimate binding site; other site 331635002885 NAD(P) binding site [chemical binding]; other site 331635002886 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 331635002887 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 331635002888 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC) [Amino acid transport and metabolism]; Region: COG1945 331635002889 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 331635002890 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 331635002891 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500