-- dump date 20140618_191137 -- class Genbank::misc_feature -- table misc_feature_note -- id note 537457000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 537457000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 537457000003 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 537457000004 Walker B motif; other site 537457000005 arginine finger; other site 537457000006 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 537457000007 DnaA box-binding interface [nucleotide binding]; other site 537457000008 DNA polymerase III subunit beta; Validated; Region: PRK05643 537457000009 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 537457000010 putative DNA binding surface [nucleotide binding]; other site 537457000011 dimer interface [polypeptide binding]; other site 537457000012 beta-clamp/clamp loader binding surface; other site 537457000013 beta-clamp/translesion DNA polymerase binding surface; other site 537457000014 recF protein; Region: recf; TIGR00611 537457000015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457000016 Walker A/P-loop; other site 537457000017 ATP binding site [chemical binding]; other site 537457000018 Q-loop/lid; other site 537457000019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457000020 ABC transporter signature motif; other site 537457000021 Walker B; other site 537457000022 D-loop; other site 537457000023 H-loop/switch region; other site 537457000024 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 537457000025 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 537457000026 E-class dimer interface [polypeptide binding]; other site 537457000027 P-class dimer interface [polypeptide binding]; other site 537457000028 active site 537457000029 Cu2+ binding site [ion binding]; other site 537457000030 Zn2+ binding site [ion binding]; other site 537457000031 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 537457000032 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 537457000033 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 537457000034 eyelet of channel; other site 537457000035 trimer interface [polypeptide binding]; other site 537457000036 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 537457000037 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 537457000038 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 537457000039 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 537457000040 putative inner membrane peptidase; Provisional; Region: PRK11778 537457000041 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 537457000042 tandem repeat interface [polypeptide binding]; other site 537457000043 oligomer interface [polypeptide binding]; other site 537457000044 active site residues [active] 537457000045 cell division protein MraZ; Reviewed; Region: PRK00326 537457000046 MraZ protein; Region: MraZ; pfam02381 537457000047 MraZ protein; Region: MraZ; pfam02381 537457000048 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 537457000049 MraW methylase family; Region: Methyltransf_5; pfam01795 537457000050 Cell division protein FtsL; Region: FtsL; pfam04999 537457000051 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 537457000052 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 537457000053 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 537457000054 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 537457000055 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 537457000056 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 537457000057 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 537457000058 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 537457000059 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 537457000060 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 537457000061 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 537457000062 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 537457000063 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 537457000064 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 537457000065 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 537457000066 Mg++ binding site [ion binding]; other site 537457000067 putative catalytic motif [active] 537457000068 putative substrate binding site [chemical binding]; other site 537457000069 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 537457000070 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 537457000071 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 537457000072 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 537457000073 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 537457000074 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 537457000075 active site 537457000076 homodimer interface [polypeptide binding]; other site 537457000077 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 537457000078 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 537457000079 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 537457000080 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 537457000081 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 537457000082 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 537457000083 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 537457000084 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 537457000085 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 537457000086 Cell division protein FtsQ; Region: FtsQ; pfam03799 537457000087 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 537457000088 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 537457000089 nucleotide binding site [chemical binding]; other site 537457000090 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 537457000091 Cell division protein FtsA; Region: FtsA; pfam14450 537457000092 cell division protein FtsZ; Region: ftsZ; TIGR00065 537457000093 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 537457000094 nucleotide binding site [chemical binding]; other site 537457000095 SulA interaction site; other site 537457000096 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 537457000097 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 537457000098 recombination and repair protein; Provisional; Region: PRK10869 537457000099 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 537457000100 Walker A/P-loop; other site 537457000101 ATP binding site [chemical binding]; other site 537457000102 Q-loop/lid; other site 537457000103 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 537457000104 ABC transporter signature motif; other site 537457000105 Walker B; other site 537457000106 D-loop; other site 537457000107 H-loop/switch region; other site 537457000108 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 537457000109 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 537457000110 Walker A/P-loop; other site 537457000111 ATP binding site [chemical binding]; other site 537457000112 Q-loop/lid; other site 537457000113 ABC transporter signature motif; other site 537457000114 Walker B; other site 537457000115 D-loop; other site 537457000116 H-loop/switch region; other site 537457000117 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 537457000118 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 537457000119 Walker A/P-loop; other site 537457000120 ATP binding site [chemical binding]; other site 537457000121 Q-loop/lid; other site 537457000122 ABC transporter signature motif; other site 537457000123 Walker B; other site 537457000124 D-loop; other site 537457000125 H-loop/switch region; other site 537457000126 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 537457000127 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 537457000128 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 537457000129 dimer interface [polypeptide binding]; other site 537457000130 conserved gate region; other site 537457000131 putative PBP binding loops; other site 537457000132 ABC-ATPase subunit interface; other site 537457000133 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 537457000134 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 537457000135 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 537457000136 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 537457000137 G1 box; other site 537457000138 putative GEF interaction site [polypeptide binding]; other site 537457000139 GTP/Mg2+ binding site [chemical binding]; other site 537457000140 Switch I region; other site 537457000141 G2 box; other site 537457000142 G3 box; other site 537457000143 Switch II region; other site 537457000144 G4 box; other site 537457000145 G5 box; other site 537457000146 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 537457000147 Protein of unknown function (DUF805); Region: DUF805; pfam05656 537457000148 Protein of unknown function (DUF805); Region: DUF805; pfam05656 537457000149 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 537457000150 putative active site [active] 537457000151 catalytic residue [active] 537457000152 GTP-binding protein YchF; Reviewed; Region: PRK09601 537457000153 YchF GTPase; Region: YchF; cd01900 537457000154 G1 box; other site 537457000155 GTP/Mg2+ binding site [chemical binding]; other site 537457000156 Switch I region; other site 537457000157 G2 box; other site 537457000158 Switch II region; other site 537457000159 G3 box; other site 537457000160 G4 box; other site 537457000161 G5 box; other site 537457000162 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 537457000163 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 537457000164 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 537457000165 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 537457000166 putative metal binding site [ion binding]; other site 537457000167 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 537457000168 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 537457000169 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 537457000170 active site 537457000171 HIGH motif; other site 537457000172 KMSK motif region; other site 537457000173 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 537457000174 tRNA binding surface [nucleotide binding]; other site 537457000175 anticodon binding site; other site 537457000176 GTPase CgtA; Reviewed; Region: obgE; PRK12298 537457000177 GTP1/OBG; Region: GTP1_OBG; pfam01018 537457000178 Obg GTPase; Region: Obg; cd01898 537457000179 G1 box; other site 537457000180 GTP/Mg2+ binding site [chemical binding]; other site 537457000181 Switch I region; other site 537457000182 G2 box; other site 537457000183 G3 box; other site 537457000184 Switch II region; other site 537457000185 G4 box; other site 537457000186 G5 box; other site 537457000187 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 537457000188 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 537457000189 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 537457000190 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 537457000191 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 537457000192 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 537457000193 domain interface [polypeptide binding]; other site 537457000194 putative active site [active] 537457000195 catalytic site [active] 537457000196 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 537457000197 domain interface [polypeptide binding]; other site 537457000198 putative active site [active] 537457000199 catalytic site [active] 537457000200 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 537457000201 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 537457000202 active site 537457000203 HIGH motif; other site 537457000204 nucleotide binding site [chemical binding]; other site 537457000205 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 537457000206 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 537457000207 active site 537457000208 KMSKS motif; other site 537457000209 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 537457000210 tRNA binding surface [nucleotide binding]; other site 537457000211 anticodon binding site; other site 537457000212 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 537457000213 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 537457000214 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 537457000215 active site 537457000216 Riboflavin kinase; Region: Flavokinase; smart00904 537457000217 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 537457000218 non-specific DNA binding site [nucleotide binding]; other site 537457000219 salt bridge; other site 537457000220 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 537457000221 sequence-specific DNA binding site [nucleotide binding]; other site 537457000222 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 537457000223 active site 537457000224 nucleotide binding site [chemical binding]; other site 537457000225 HIGH motif; other site 537457000226 KMSKS motif; other site 537457000227 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 537457000228 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 537457000229 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 537457000230 active site 537457000231 metal binding site [ion binding]; metal-binding site 537457000232 two-component response regulator; Provisional; Region: PRK11173 537457000233 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 537457000234 active site 537457000235 phosphorylation site [posttranslational modification] 537457000236 intermolecular recognition site; other site 537457000237 dimerization interface [polypeptide binding]; other site 537457000238 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 537457000239 DNA binding site [nucleotide binding] 537457000240 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 537457000241 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 537457000242 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 537457000243 active site 537457000244 motif I; other site 537457000245 motif II; other site 537457000246 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 537457000247 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 537457000248 catalytic residue [active] 537457000249 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 537457000250 active site 537457000251 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 537457000252 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 537457000253 G1 box; other site 537457000254 putative GEF interaction site [polypeptide binding]; other site 537457000255 GTP/Mg2+ binding site [chemical binding]; other site 537457000256 Switch I region; other site 537457000257 G2 box; other site 537457000258 G3 box; other site 537457000259 Switch II region; other site 537457000260 G4 box; other site 537457000261 G5 box; other site 537457000262 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 537457000263 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 537457000264 glutaredoxin 1; Provisional; Region: grxA; PRK11200 537457000265 ribonuclease PH; Reviewed; Region: rph; PRK00173 537457000266 Ribonuclease PH; Region: RNase_PH_bact; cd11362 537457000267 hexamer interface [polypeptide binding]; other site 537457000268 active site 537457000269 hypothetical protein; Provisional; Region: PRK11820 537457000270 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 537457000271 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 537457000272 putative global regulator; Reviewed; Region: PRK09559 537457000273 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 537457000274 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 537457000275 transcriptional regulator NarP; Provisional; Region: PRK10403 537457000276 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 537457000277 active site 537457000278 phosphorylation site [posttranslational modification] 537457000279 intermolecular recognition site; other site 537457000280 dimerization interface [polypeptide binding]; other site 537457000281 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 537457000282 DNA binding residues [nucleotide binding] 537457000283 dimerization interface [polypeptide binding]; other site 537457000284 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 537457000285 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 537457000286 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 537457000287 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 537457000288 putative RNA binding site [nucleotide binding]; other site 537457000289 Methyltransferase domain; Region: Methyltransf_26; pfam13659 537457000290 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 537457000291 transaldolase-like protein; Provisional; Region: PTZ00411 537457000292 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 537457000293 active site 537457000294 dimer interface [polypeptide binding]; other site 537457000295 catalytic residue [active] 537457000296 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 537457000297 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 537457000298 peptide binding site [polypeptide binding]; other site 537457000299 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 537457000300 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 537457000301 peptide binding site [polypeptide binding]; other site 537457000302 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 537457000303 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 537457000304 dimer interface [polypeptide binding]; other site 537457000305 conserved gate region; other site 537457000306 putative PBP binding loops; other site 537457000307 ABC-ATPase subunit interface; other site 537457000308 dipeptide transporter; Provisional; Region: PRK10913 537457000309 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 537457000310 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 537457000311 dimer interface [polypeptide binding]; other site 537457000312 conserved gate region; other site 537457000313 putative PBP binding loops; other site 537457000314 ABC-ATPase subunit interface; other site 537457000315 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 537457000316 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 537457000317 Walker A/P-loop; other site 537457000318 ATP binding site [chemical binding]; other site 537457000319 Q-loop/lid; other site 537457000320 ABC transporter signature motif; other site 537457000321 Walker B; other site 537457000322 D-loop; other site 537457000323 H-loop/switch region; other site 537457000324 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 537457000325 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 537457000326 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 537457000327 Walker A/P-loop; other site 537457000328 ATP binding site [chemical binding]; other site 537457000329 Q-loop/lid; other site 537457000330 ABC transporter signature motif; other site 537457000331 Walker B; other site 537457000332 D-loop; other site 537457000333 H-loop/switch region; other site 537457000334 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 537457000335 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 537457000336 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 537457000337 nucleophilic elbow; other site 537457000338 catalytic triad; other site 537457000339 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 537457000340 homotrimer interaction site [polypeptide binding]; other site 537457000341 putative active site [active] 537457000342 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 537457000343 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 537457000344 homodimer interface [polypeptide binding]; other site 537457000345 substrate-cofactor binding pocket; other site 537457000346 catalytic residue [active] 537457000347 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 537457000348 putative GSH binding site [chemical binding]; other site 537457000349 catalytic residues [active] 537457000350 recombination protein RecR; Reviewed; Region: recR; PRK00076 537457000351 RecR protein; Region: RecR; pfam02132 537457000352 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 537457000353 putative active site [active] 537457000354 putative metal-binding site [ion binding]; other site 537457000355 tetramer interface [polypeptide binding]; other site 537457000356 hypothetical protein; Validated; Region: PRK00153 537457000357 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 537457000358 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 537457000359 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 537457000360 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 537457000361 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 537457000362 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 537457000363 active site residue [active] 537457000364 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 537457000365 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 537457000366 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 537457000367 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 537457000368 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 537457000369 Dak1 domain; Region: Dak1; pfam02733 537457000370 thioredoxin reductase; Provisional; Region: PRK10262 537457000371 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 537457000372 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 537457000373 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 537457000374 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 537457000375 Ligand binding site; other site 537457000376 oligomer interface; other site 537457000377 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 537457000378 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 537457000379 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 537457000380 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 537457000381 putative NADH binding site [chemical binding]; other site 537457000382 putative active site [active] 537457000383 nudix motif; other site 537457000384 putative metal binding site [ion binding]; other site 537457000385 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 537457000386 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 537457000387 active site 537457000388 EamA-like transporter family; Region: EamA; cl17759 537457000389 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 537457000390 EamA-like transporter family; Region: EamA; pfam00892 537457000391 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 537457000392 proline dipeptidase; Provisional; Region: PRK13607 537457000393 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 537457000394 active site 537457000395 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 537457000396 CPxP motif; other site 537457000397 RNase E inhibitor protein; Provisional; Region: PRK11191 537457000398 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 537457000399 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 537457000400 G1 box; other site 537457000401 GTP/Mg2+ binding site [chemical binding]; other site 537457000402 Switch I region; other site 537457000403 G2 box; other site 537457000404 G3 box; other site 537457000405 Switch II region; other site 537457000406 G4 box; other site 537457000407 G5 box; other site 537457000408 Protein of unknown function (DUF805); Region: DUF805; pfam05656 537457000409 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 537457000410 ZIP Zinc transporter; Region: Zip; pfam02535 537457000411 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 537457000412 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 537457000413 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 537457000414 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 537457000415 PYR/PP interface [polypeptide binding]; other site 537457000416 dimer interface [polypeptide binding]; other site 537457000417 TPP binding site [chemical binding]; other site 537457000418 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 537457000419 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 537457000420 TPP-binding site [chemical binding]; other site 537457000421 dimer interface [polypeptide binding]; other site 537457000422 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 537457000423 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 537457000424 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 537457000425 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 537457000426 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 537457000427 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 537457000428 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 537457000429 trimer interface [polypeptide binding]; other site 537457000430 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 537457000431 trimer interface [polypeptide binding]; other site 537457000432 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 537457000433 trimer interface [polypeptide binding]; other site 537457000434 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 537457000435 trimer interface [polypeptide binding]; other site 537457000436 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 537457000437 trimer interface [polypeptide binding]; other site 537457000438 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 537457000439 trimer interface [polypeptide binding]; other site 537457000440 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 537457000441 trimer interface [polypeptide binding]; other site 537457000442 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 537457000443 YadA-like C-terminal region; Region: YadA; pfam03895 537457000444 uracil-xanthine permease; Region: ncs2; TIGR00801 537457000445 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 537457000446 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 537457000447 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 537457000448 Glutamate binding site [chemical binding]; other site 537457000449 NAD binding site [chemical binding]; other site 537457000450 catalytic residues [active] 537457000451 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 537457000452 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 537457000453 Na binding site [ion binding]; other site 537457000454 Transcriptional regulator [Transcription]; Region: IclR; COG1414 537457000455 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 537457000456 putative DNA binding site [nucleotide binding]; other site 537457000457 putative Zn2+ binding site [ion binding]; other site 537457000458 Bacterial transcriptional regulator; Region: IclR; pfam01614 537457000459 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 537457000460 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 537457000461 Cell division protein ZapA; Region: ZapA; cl01146 537457000462 hypothetical protein; Reviewed; Region: PRK01736 537457000463 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 537457000464 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 537457000465 substrate binding site [chemical binding]; other site 537457000466 active site 537457000467 Protein of unknown function (DUF416); Region: DUF416; cl01166 537457000468 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 537457000469 IHF dimer interface [polypeptide binding]; other site 537457000470 IHF - DNA interface [nucleotide binding]; other site 537457000471 thymidylate synthase; Reviewed; Region: thyA; PRK01827 537457000472 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 537457000473 dimerization interface [polypeptide binding]; other site 537457000474 active site 537457000475 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 537457000476 biotin synthase; Region: bioB; TIGR00433 537457000477 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 537457000478 FeS/SAM binding site; other site 537457000479 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 537457000480 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 537457000481 DNA-binding site [nucleotide binding]; DNA binding site 537457000482 RNA-binding motif; other site 537457000483 ProP expression regulator; Provisional; Region: PRK04950 537457000484 ProQ/FINO family; Region: ProQ; smart00945 537457000485 carboxy-terminal protease; Provisional; Region: PRK11186 537457000486 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 537457000487 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 537457000488 protein binding site [polypeptide binding]; other site 537457000489 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 537457000490 Catalytic dyad [active] 537457000491 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 537457000492 murein L,D-transpeptidase; Provisional; Region: PRK10594 537457000493 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 537457000494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 537457000495 Peptidase M15; Region: Peptidase_M15_3; cl01194 537457000496 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 537457000497 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 537457000498 active site 537457000499 substrate binding site [chemical binding]; other site 537457000500 ATP binding site [chemical binding]; other site 537457000501 Phosphotransferase enzyme family; Region: APH; pfam01636 537457000502 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 537457000503 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 537457000504 putative dimer interface [polypeptide binding]; other site 537457000505 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 537457000506 nucleotide binding site/active site [active] 537457000507 HIT family signature motif; other site 537457000508 catalytic residue [active] 537457000509 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 537457000510 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 537457000511 ABC-ATPase subunit interface; other site 537457000512 dimer interface [polypeptide binding]; other site 537457000513 putative PBP binding regions; other site 537457000514 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 537457000515 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 537457000516 ABC-ATPase subunit interface; other site 537457000517 dimer interface [polypeptide binding]; other site 537457000518 putative PBP binding regions; other site 537457000519 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 537457000520 RNA/DNA hybrid binding site [nucleotide binding]; other site 537457000521 active site 537457000522 GTPase RsgA; Reviewed; Region: PRK12288 537457000523 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 537457000524 RNA binding site [nucleotide binding]; other site 537457000525 homodimer interface [polypeptide binding]; other site 537457000526 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 537457000527 GTPase/Zn-binding domain interface [polypeptide binding]; other site 537457000528 GTP/Mg2+ binding site [chemical binding]; other site 537457000529 G4 box; other site 537457000530 G5 box; other site 537457000531 G1 box; other site 537457000532 Switch I region; other site 537457000533 G2 box; other site 537457000534 G3 box; other site 537457000535 Switch II region; other site 537457000536 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 537457000537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457000538 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 537457000539 dimerization interface [polypeptide binding]; other site 537457000540 substrate binding pocket [chemical binding]; other site 537457000541 dUMP phosphatase; Provisional; Region: PRK09449 537457000542 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 537457000543 motif II; other site 537457000544 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 537457000545 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457000546 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 537457000547 substrate binding site [chemical binding]; other site 537457000548 dimerization interface [polypeptide binding]; other site 537457000549 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 537457000550 active site 537457000551 homotetramer interface [polypeptide binding]; other site 537457000552 homodimer interface [polypeptide binding]; other site 537457000553 CTP synthetase; Validated; Region: pyrG; PRK05380 537457000554 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 537457000555 Catalytic site [active] 537457000556 active site 537457000557 UTP binding site [chemical binding]; other site 537457000558 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 537457000559 active site 537457000560 putative oxyanion hole; other site 537457000561 catalytic triad [active] 537457000562 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 537457000563 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 537457000564 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 537457000565 substrate binding site [chemical binding]; other site 537457000566 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 537457000567 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 537457000568 substrate binding site [chemical binding]; other site 537457000569 ligand binding site [chemical binding]; other site 537457000570 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 537457000571 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 537457000572 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 537457000573 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 537457000574 fructuronate transporter; Provisional; Region: PRK10034; cl15264 537457000575 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 537457000576 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 537457000577 acylphosphatase; Provisional; Region: PRK14448 537457000578 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 537457000579 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 537457000580 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 537457000581 putative active site [active] 537457000582 putative metal-binding site [ion binding]; other site 537457000583 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 537457000584 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 537457000585 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 537457000586 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 537457000587 FMN binding site [chemical binding]; other site 537457000588 active site 537457000589 catalytic residues [active] 537457000590 substrate binding site [chemical binding]; other site 537457000591 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 537457000592 dimer interface [polypeptide binding]; other site 537457000593 putative radical transfer pathway; other site 537457000594 diiron center [ion binding]; other site 537457000595 tyrosyl radical; other site 537457000596 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 537457000597 Class I ribonucleotide reductase; Region: RNR_I; cd01679 537457000598 active site 537457000599 dimer interface [polypeptide binding]; other site 537457000600 catalytic residues [active] 537457000601 effector binding site; other site 537457000602 R2 peptide binding site; other site 537457000603 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 537457000604 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 537457000605 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 537457000606 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 537457000607 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 537457000608 E3 interaction surface; other site 537457000609 lipoyl attachment site [posttranslational modification]; other site 537457000610 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 537457000611 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 537457000612 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 537457000613 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 537457000614 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 537457000615 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 537457000616 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 537457000617 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 537457000618 FAD binding pocket [chemical binding]; other site 537457000619 FAD binding motif [chemical binding]; other site 537457000620 phosphate binding motif [ion binding]; other site 537457000621 beta-alpha-beta structure motif; other site 537457000622 NAD binding pocket [chemical binding]; other site 537457000623 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 537457000624 ApbE family; Region: ApbE; pfam02424 537457000625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 537457000626 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 537457000627 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 537457000628 Ligand Binding Site [chemical binding]; other site 537457000629 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 537457000630 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 537457000631 putative substrate translocation pore; other site 537457000632 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 537457000633 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 537457000634 recombination associated protein; Reviewed; Region: rdgC; PRK00321 537457000635 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 537457000636 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 537457000637 motif II; other site 537457000638 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 537457000639 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 537457000640 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 537457000641 Class III ribonucleotide reductase; Region: RNR_III; cd01675 537457000642 effector binding site; other site 537457000643 active site 537457000644 Zn binding site [ion binding]; other site 537457000645 glycine loop; other site 537457000646 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: RNR_activ_nrdG3; TIGR02826 537457000647 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 537457000648 electron transport complex protein RsxA; Provisional; Region: PRK05151 537457000649 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 537457000650 SLBB domain; Region: SLBB; pfam10531 537457000651 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 537457000652 Predicted membrane protein [Function unknown]; Region: COG2860 537457000653 UPF0126 domain; Region: UPF0126; pfam03458 537457000654 UPF0126 domain; Region: UPF0126; pfam03458 537457000655 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 537457000656 electron transport complex protein RnfG; Validated; Region: PRK01908 537457000657 electron transport complex RsxE subunit; Provisional; Region: PRK12405 537457000658 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 537457000659 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 537457000660 putative acyl-acceptor binding pocket; other site 537457000661 hypothetical protein; Validated; Region: PRK06886 537457000662 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 537457000663 active site 537457000664 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 537457000665 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 537457000666 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 537457000667 poly(A) polymerase; Region: pcnB; TIGR01942 537457000668 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 537457000669 active site 537457000670 NTP binding site [chemical binding]; other site 537457000671 metal binding triad [ion binding]; metal-binding site 537457000672 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 537457000673 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 537457000674 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 537457000675 catalytic center binding site [active] 537457000676 ATP binding site [chemical binding]; other site 537457000677 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 537457000678 hypothetical protein; Provisional; Region: PRK10695 537457000679 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 537457000680 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 537457000681 dimer interface [polypeptide binding]; other site 537457000682 active site 537457000683 metal binding site [ion binding]; metal-binding site 537457000684 glutathione binding site [chemical binding]; other site 537457000685 ribonuclease T; Provisional; Region: PRK05168 537457000686 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 537457000687 active site 537457000688 catalytic site [active] 537457000689 substrate binding site [chemical binding]; other site 537457000690 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 537457000691 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 537457000692 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 537457000693 prephenate dehydrogenase; Validated; Region: PRK08507 537457000694 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 537457000695 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 537457000696 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 537457000697 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 537457000698 putative active site [active] 537457000699 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 537457000700 pyruvate kinase; Provisional; Region: PRK05826 537457000701 domain interfaces; other site 537457000702 active site 537457000703 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 537457000704 catalytic core [active] 537457000705 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 537457000706 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 537457000707 FMN binding site [chemical binding]; other site 537457000708 active site 537457000709 catalytic residues [active] 537457000710 substrate binding site [chemical binding]; other site 537457000711 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 537457000712 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 537457000713 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 537457000714 Na2 binding site [ion binding]; other site 537457000715 putative substrate binding site 1 [chemical binding]; other site 537457000716 Na binding site 1 [ion binding]; other site 537457000717 putative substrate binding site 2 [chemical binding]; other site 537457000718 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 537457000719 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 537457000720 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 537457000721 active site 537457000722 dimer interface [polypeptide binding]; other site 537457000723 metal binding site [ion binding]; metal-binding site 537457000724 shikimate kinase; Reviewed; Region: aroK; PRK00131 537457000725 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 537457000726 ADP binding site [chemical binding]; other site 537457000727 magnesium binding site [ion binding]; other site 537457000728 putative shikimate binding site; other site 537457000729 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 537457000730 Transglycosylase; Region: Transgly; pfam00912 537457000731 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 537457000732 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 537457000733 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 537457000734 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 537457000735 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 537457000736 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 537457000737 putative RNA binding site [nucleotide binding]; other site 537457000738 thiamine monophosphate kinase; Provisional; Region: PRK05731 537457000739 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 537457000740 ATP binding site [chemical binding]; other site 537457000741 dimerization interface [polypeptide binding]; other site 537457000742 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 537457000743 tetramer interfaces [polypeptide binding]; other site 537457000744 binuclear metal-binding site [ion binding]; other site 537457000745 LysE type translocator; Region: LysE; cl00565 537457000746 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 537457000747 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 537457000748 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 537457000749 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 537457000750 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 537457000751 active site 537457000752 dimerization interface [polypeptide binding]; other site 537457000753 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 537457000754 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 537457000755 TPP-binding site; other site 537457000756 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 537457000757 PYR/PP interface [polypeptide binding]; other site 537457000758 dimer interface [polypeptide binding]; other site 537457000759 TPP binding site [chemical binding]; other site 537457000760 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 537457000761 HTH-like domain; Region: HTH_21; pfam13276 537457000762 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 537457000763 Integrase core domain; Region: rve; pfam00665 537457000764 Integrase core domain; Region: rve_2; pfam13333 537457000765 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 537457000766 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457000767 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457000768 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 537457000769 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 537457000770 dimer interface [polypeptide binding]; other site 537457000771 active site 537457000772 glycine-pyridoxal phosphate binding site [chemical binding]; other site 537457000773 folate binding site [chemical binding]; other site 537457000774 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 537457000775 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 537457000776 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 537457000777 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 537457000778 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 537457000779 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 537457000780 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 537457000781 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 537457000782 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 537457000783 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 537457000784 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 537457000785 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 537457000786 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 537457000787 active site 537457000788 dimer interface [polypeptide binding]; other site 537457000789 motif 1; other site 537457000790 motif 2; other site 537457000791 motif 3; other site 537457000792 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 537457000793 anticodon binding site; other site 537457000794 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 537457000795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 537457000796 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 537457000797 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 537457000798 translation initiation factor IF-3; Region: infC; TIGR00168 537457000799 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 537457000800 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 537457000801 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 537457000802 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 537457000803 23S rRNA binding site [nucleotide binding]; other site 537457000804 L21 binding site [polypeptide binding]; other site 537457000805 L13 binding site [polypeptide binding]; other site 537457000806 hypothetical protein; Provisional; Region: PRK06762 537457000807 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 537457000808 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 537457000809 Domain of unknown function DUF21; Region: DUF21; pfam01595 537457000810 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 537457000811 Transporter associated domain; Region: CorC_HlyC; smart01091 537457000812 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 537457000813 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 537457000814 active site 537457000815 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 537457000816 catalytic core [active] 537457000817 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 537457000818 hypothetical protein; Validated; Region: PRK00228 537457000819 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 537457000820 RNA methyltransferase, RsmE family; Region: TIGR00046 537457000821 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 537457000822 BolA-like protein; Region: BolA; cl00386 537457000823 NlpE N-terminal domain; Region: NlpE; pfam04170 537457000824 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 537457000825 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 537457000826 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 537457000827 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 537457000828 nucleotide binding region [chemical binding]; other site 537457000829 ATP-binding site [chemical binding]; other site 537457000830 SEC-C motif; Region: SEC-C; pfam02810 537457000831 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 537457000832 TPR motif; other site 537457000833 TPR repeat; Region: TPR_11; pfam13414 537457000834 binding surface 537457000835 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 537457000836 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 537457000837 active site 537457000838 8-oxo-dGMP binding site [chemical binding]; other site 537457000839 nudix motif; other site 537457000840 metal binding site [ion binding]; metal-binding site 537457000841 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 537457000842 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 537457000843 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 537457000844 homohexameric interface [polypeptide binding]; other site 537457000845 feedback inhibition sensing region; other site 537457000846 nucleotide binding site [chemical binding]; other site 537457000847 N-acetyl-L-glutamate binding site [chemical binding]; other site 537457000848 acetylornithine aminotransferase; Provisional; Region: PRK02627 537457000849 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 537457000850 inhibitor-cofactor binding pocket; inhibition site 537457000851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457000852 catalytic residue [active] 537457000853 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 537457000854 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 537457000855 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 537457000856 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 537457000857 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 537457000858 ligand-binding site [chemical binding]; other site 537457000859 transcription termination factor Rho; Provisional; Region: rho; PRK09376 537457000860 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 537457000861 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 537457000862 RNA binding site [nucleotide binding]; other site 537457000863 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 537457000864 multimer interface [polypeptide binding]; other site 537457000865 Walker A motif; other site 537457000866 ATP binding site [chemical binding]; other site 537457000867 Walker B motif; other site 537457000868 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 537457000869 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 537457000870 dimer interface [polypeptide binding]; other site 537457000871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457000872 catalytic residue [active] 537457000873 homoserine kinase; Provisional; Region: PRK01212 537457000874 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 537457000875 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 537457000876 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 537457000877 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 537457000878 nucleotide binding site [chemical binding]; other site 537457000879 substrate binding site [chemical binding]; other site 537457000880 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 537457000881 dimer interface [polypeptide binding]; other site 537457000882 putative threonine allosteric regulatory site; other site 537457000883 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 537457000884 putative threonine allosteric regulatory site; other site 537457000885 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 537457000886 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 537457000887 superoxide dismutase; Provisional; Region: PRK10925 537457000888 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 537457000889 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 537457000890 alanine racemase; Reviewed; Region: alr; PRK00053 537457000891 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 537457000892 active site 537457000893 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 537457000894 substrate binding site [chemical binding]; other site 537457000895 catalytic residues [active] 537457000896 dimer interface [polypeptide binding]; other site 537457000897 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 537457000898 AAA domain; Region: AAA_30; pfam13604 537457000899 Family description; Region: UvrD_C_2; pfam13538 537457000900 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 537457000901 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 537457000902 metal binding site [ion binding]; metal-binding site 537457000903 dimer interface [polypeptide binding]; other site 537457000904 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 537457000905 active site 537457000906 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 537457000907 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 537457000908 catalytic site [active] 537457000909 G-X2-G-X-G-K; other site 537457000910 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 537457000911 hypothetical protein; Validated; Region: PRK01777 537457000912 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 537457000913 putative coenzyme Q binding site [chemical binding]; other site 537457000914 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 537457000915 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457000916 Walker A/P-loop; other site 537457000917 ATP binding site [chemical binding]; other site 537457000918 Q-loop/lid; other site 537457000919 ABC transporter signature motif; other site 537457000920 Walker B; other site 537457000921 D-loop; other site 537457000922 H-loop/switch region; other site 537457000923 TOBE domain; Region: TOBE; pfam03459 537457000924 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 537457000925 dimer interface [polypeptide binding]; other site 537457000926 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 537457000927 conserved gate region; other site 537457000928 putative PBP binding loops; other site 537457000929 ABC-ATPase subunit interface; other site 537457000930 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 537457000931 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 537457000932 inner membrane transport permease; Provisional; Region: PRK15066 537457000933 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 537457000934 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 537457000935 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 537457000936 Walker A/P-loop; other site 537457000937 ATP binding site [chemical binding]; other site 537457000938 Q-loop/lid; other site 537457000939 ABC transporter signature motif; other site 537457000940 Walker B; other site 537457000941 D-loop; other site 537457000942 H-loop/switch region; other site 537457000943 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 537457000944 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 537457000945 Walker A motif; other site 537457000946 ATP binding site [chemical binding]; other site 537457000947 Walker B motif; other site 537457000948 DNA polymerase III subunit delta'; Validated; Region: PRK08485 537457000949 arginine finger; other site 537457000950 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 537457000951 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 537457000952 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 537457000953 active site 537457000954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 537457000955 YheO-like PAS domain; Region: PAS_6; pfam08348 537457000956 HTH domain; Region: HTH_22; pfam13309 537457000957 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 537457000958 homotrimer interaction site [polypeptide binding]; other site 537457000959 putative active site [active] 537457000960 threonine synthase; Validated; Region: PRK06450 537457000961 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 537457000962 homodimer interface [polypeptide binding]; other site 537457000963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457000964 catalytic residue [active] 537457000965 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 537457000966 putative deacylase active site [active] 537457000967 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 537457000968 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 537457000969 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 537457000970 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 537457000971 metal binding site [ion binding]; metal-binding site 537457000972 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 537457000973 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 537457000974 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 537457000975 YccA-like proteins; Region: YccA_like; cd10433 537457000976 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 537457000977 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 537457000978 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 537457000979 N-terminal plug; other site 537457000980 ligand-binding site [chemical binding]; other site 537457000981 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 537457000982 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 537457000983 GIY-YIG motif/motif A; other site 537457000984 active site 537457000985 catalytic site [active] 537457000986 putative DNA binding site [nucleotide binding]; other site 537457000987 metal binding site [ion binding]; metal-binding site 537457000988 UvrB/uvrC motif; Region: UVR; pfam02151 537457000989 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 537457000990 Helix-hairpin-helix motif; Region: HHH; pfam00633 537457000991 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 537457000992 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 537457000993 active site 537457000994 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 537457000995 Part of AAA domain; Region: AAA_19; pfam13245 537457000996 Family description; Region: UvrD_C_2; pfam13538 537457000997 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 537457000998 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 537457000999 Walker A/P-loop; other site 537457001000 ATP binding site [chemical binding]; other site 537457001001 Q-loop/lid; other site 537457001002 ABC transporter signature motif; other site 537457001003 Walker B; other site 537457001004 D-loop; other site 537457001005 H-loop/switch region; other site 537457001006 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 537457001007 dimer interface [polypeptide binding]; other site 537457001008 conserved gate region; other site 537457001009 putative PBP binding loops; other site 537457001010 ABC-ATPase subunit interface; other site 537457001011 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 537457001012 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 537457001013 dimer interface [polypeptide binding]; other site 537457001014 conserved gate region; other site 537457001015 putative PBP binding loops; other site 537457001016 ABC-ATPase subunit interface; other site 537457001017 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 537457001018 RuvA N terminal domain; Region: RuvA_N; pfam01330 537457001019 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 537457001020 helix-hairpin-helix signature motif; other site 537457001021 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 537457001022 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 537457001023 Walker A motif; other site 537457001024 ATP binding site [chemical binding]; other site 537457001025 Walker B motif; other site 537457001026 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 537457001027 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 537457001028 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 537457001029 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 537457001030 S-adenosylmethionine binding site [chemical binding]; other site 537457001031 DNA gyrase subunit A; Validated; Region: PRK05560 537457001032 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 537457001033 CAP-like domain; other site 537457001034 active site 537457001035 primary dimer interface [polypeptide binding]; other site 537457001036 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 537457001037 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 537457001038 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 537457001039 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 537457001040 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 537457001041 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 537457001042 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 537457001043 HsdM N-terminal domain; Region: HsdM_N; pfam12161 537457001044 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 537457001045 S-adenosylmethionine binding site [chemical binding]; other site 537457001046 Virulence protein [General function prediction only]; Region: COG3943 537457001047 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 537457001048 Abi-like protein; Region: Abi_2; cl01988 537457001049 Abi-like protein; Region: Abi_2; cl01988 537457001050 Abi-like protein; Region: Abi_2; cl01988 537457001051 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 537457001052 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 537457001053 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 537457001054 AAA domain; Region: AAA_13; pfam13166 537457001055 AAA domain; Region: AAA_13; pfam13166 537457001056 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 537457001057 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 537457001058 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 537457001059 ATP binding site [chemical binding]; other site 537457001060 putative Mg++ binding site [ion binding]; other site 537457001061 ABC transporter ATPase component; Reviewed; Region: PRK11147 537457001062 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 537457001063 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 537457001064 ABC transporter; Region: ABC_tran_2; pfam12848 537457001065 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 537457001066 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 537457001067 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 537457001068 putative ATP binding site [chemical binding]; other site 537457001069 putative substrate interface [chemical binding]; other site 537457001070 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 537457001071 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 537457001072 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 537457001073 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 537457001074 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 537457001075 active site 537457001076 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 537457001077 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 537457001078 colicin uptake protein TolR; Provisional; Region: PRK11024 537457001079 TolA C-terminal; Region: TolA; pfam06519 537457001080 TolB amino-terminal domain; Region: TolB_N; pfam04052 537457001081 translocation protein TolB; Provisional; Region: tolB; PRK01742 537457001082 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 537457001083 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 537457001084 translocation protein TolB; Provisional; Region: tolB; PRK01742 537457001085 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 537457001086 ligand binding site [chemical binding]; other site 537457001087 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 537457001088 EamA-like transporter family; Region: EamA; pfam00892 537457001089 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 537457001090 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 537457001091 putative metal binding site [ion binding]; other site 537457001092 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 537457001093 HSP70 interaction site [polypeptide binding]; other site 537457001094 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 537457001095 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 537457001096 FMN binding site [chemical binding]; other site 537457001097 active site 537457001098 catalytic residues [active] 537457001099 substrate binding site [chemical binding]; other site 537457001100 hypothetical protein; Provisional; Region: PRK05415 537457001101 Domain of unknown function (DUF697); Region: DUF697; cl12064 537457001102 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 537457001103 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457001104 Walker A/P-loop; other site 537457001105 ATP binding site [chemical binding]; other site 537457001106 Q-loop/lid; other site 537457001107 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 537457001108 ABC transporter; Region: ABC_tran_2; pfam12848 537457001109 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 537457001110 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 537457001111 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 537457001112 dimer interface [polypeptide binding]; other site 537457001113 putative functional site; other site 537457001114 putative MPT binding site; other site 537457001115 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 537457001116 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 537457001117 ATP binding site [chemical binding]; other site 537457001118 substrate interface [chemical binding]; other site 537457001119 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 537457001120 TRAM domain; Region: TRAM; pfam01938 537457001121 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 537457001122 S-adenosylmethionine binding site [chemical binding]; other site 537457001123 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 537457001124 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 537457001125 Zn2+ binding site [ion binding]; other site 537457001126 Mg2+ binding site [ion binding]; other site 537457001127 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 537457001128 ATP-dependent helicase HepA; Validated; Region: PRK04914 537457001129 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 537457001130 ATP binding site [chemical binding]; other site 537457001131 putative Mg++ binding site [ion binding]; other site 537457001132 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 537457001133 nucleotide binding region [chemical binding]; other site 537457001134 ATP-binding site [chemical binding]; other site 537457001135 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 537457001136 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 537457001137 active site 537457001138 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 537457001139 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 537457001140 amidase catalytic site [active] 537457001141 Zn binding residues [ion binding]; other site 537457001142 substrate binding site [chemical binding]; other site 537457001143 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 537457001144 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 537457001145 active site 537457001146 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 537457001147 substrate binding site [chemical binding]; other site 537457001148 THF binding site; other site 537457001149 zinc-binding site [ion binding]; other site 537457001150 cystathionine beta-lyase; Provisional; Region: PRK08114 537457001151 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 537457001152 homodimer interface [polypeptide binding]; other site 537457001153 substrate-cofactor binding pocket; other site 537457001154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457001155 catalytic residue [active] 537457001156 disulfide bond formation protein B; Provisional; Region: PRK01749 537457001157 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 537457001158 fatty acid metabolism regulator; Provisional; Region: PRK04984 537457001159 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 537457001160 DNA-binding site [nucleotide binding]; DNA binding site 537457001161 FadR C-terminal domain; Region: FadR_C; pfam07840 537457001162 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 537457001163 PhoH-like protein; Region: PhoH; pfam02562 537457001164 Predicted permeases [General function prediction only]; Region: COG0679 537457001165 peptide chain release factor 2; Validated; Region: prfB; PRK00578 537457001166 This domain is found in peptide chain release factors; Region: PCRF; smart00937 537457001167 RF-1 domain; Region: RF-1; pfam00472 537457001168 selenophosphate synthetase; Provisional; Region: PRK00943 537457001169 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 537457001170 dimerization interface [polypeptide binding]; other site 537457001171 putative ATP binding site [chemical binding]; other site 537457001172 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 537457001173 nudix motif; other site 537457001174 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 537457001175 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 537457001176 hypothetical protein; Provisional; Region: PRK11281 537457001177 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 537457001178 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 537457001179 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 537457001180 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 537457001181 active site 537457001182 phosphorylation site [posttranslational modification] 537457001183 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 537457001184 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 537457001185 Walker A/P-loop; other site 537457001186 ATP binding site [chemical binding]; other site 537457001187 Q-loop/lid; other site 537457001188 ABC transporter signature motif; other site 537457001189 Walker B; other site 537457001190 D-loop; other site 537457001191 H-loop/switch region; other site 537457001192 OstA-like protein; Region: OstA; cl00844 537457001193 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 537457001194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 537457001195 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 537457001196 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 537457001197 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 537457001198 Repair protein; Region: Repair_PSII; pfam04536 537457001199 Repair protein; Region: Repair_PSII; cl01535 537457001200 LemA family; Region: LemA; pfam04011 537457001201 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 537457001202 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 537457001203 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 537457001204 active site 537457001205 P-loop; other site 537457001206 phosphorylation site [posttranslational modification] 537457001207 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 537457001208 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 537457001209 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 537457001210 putative substrate binding site [chemical binding]; other site 537457001211 putative ATP binding site [chemical binding]; other site 537457001212 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 537457001213 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 537457001214 active site 537457001215 phosphorylation site [posttranslational modification] 537457001216 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 537457001217 dimerization domain swap beta strand [polypeptide binding]; other site 537457001218 regulatory protein interface [polypeptide binding]; other site 537457001219 active site 537457001220 regulatory phosphorylation site [posttranslational modification]; other site 537457001221 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 537457001222 dimerization domain swap beta strand [polypeptide binding]; other site 537457001223 regulatory protein interface [polypeptide binding]; other site 537457001224 active site 537457001225 regulatory phosphorylation site [posttranslational modification]; other site 537457001226 glycogen branching enzyme; Provisional; Region: PRK05402 537457001227 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 537457001228 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 537457001229 active site 537457001230 catalytic site [active] 537457001231 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 537457001232 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 537457001233 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 537457001234 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 537457001235 active site 537457001236 catalytic site [active] 537457001237 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 537457001238 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 537457001239 ligand binding site; other site 537457001240 oligomer interface; other site 537457001241 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 537457001242 dimer interface [polypeptide binding]; other site 537457001243 N-terminal domain interface [polypeptide binding]; other site 537457001244 sulfate 1 binding site; other site 537457001245 glycogen synthase; Provisional; Region: glgA; PRK00654 537457001246 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 537457001247 ADP-binding pocket [chemical binding]; other site 537457001248 homodimer interface [polypeptide binding]; other site 537457001249 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 537457001250 homodimer interface [polypeptide binding]; other site 537457001251 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 537457001252 active site pocket [active] 537457001253 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 537457001254 active site 537457001255 multimer interface [polypeptide binding]; other site 537457001256 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 537457001257 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 537457001258 active site 537457001259 HIGH motif; other site 537457001260 KMSKS motif; other site 537457001261 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 537457001262 tRNA binding surface [nucleotide binding]; other site 537457001263 anticodon binding site; other site 537457001264 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 537457001265 dimer interface [polypeptide binding]; other site 537457001266 putative tRNA-binding site [nucleotide binding]; other site 537457001267 O-succinylbenzoate synthase; Provisional; Region: PRK05105 537457001268 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 537457001269 active site 537457001270 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 537457001271 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 537457001272 RNA binding surface [nucleotide binding]; other site 537457001273 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 537457001274 active site 537457001275 uracil binding [chemical binding]; other site 537457001276 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 537457001277 putative substrate translocation pore; other site 537457001278 Part of AAA domain; Region: AAA_19; pfam13245 537457001279 Family description; Region: UvrD_C_2; pfam13538 537457001280 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 537457001281 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 537457001282 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 537457001283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 537457001284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 537457001285 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 537457001286 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 537457001287 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 537457001288 putative substrate translocation pore; other site 537457001289 Major Facilitator Superfamily; Region: MFS_1; pfam07690 537457001290 tetracycline repressor protein TetR; Provisional; Region: PRK13756 537457001291 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 537457001292 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 537457001293 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 537457001294 dimerization interface [polypeptide binding]; other site 537457001295 putative DNA binding site [nucleotide binding]; other site 537457001296 putative Zn2+ binding site [ion binding]; other site 537457001297 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 537457001298 TniQ; Region: TniQ; pfam06527 537457001299 Bacterial TniB protein; Region: TniB; pfam05621 537457001300 AAA domain; Region: AAA_22; pfam13401 537457001301 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457001302 Winged helix-turn helix; Region: HTH_29; pfam13551 537457001303 Integrase core domain; Region: rve; pfam00665 537457001304 Integrase core domain; Region: rve_3; cl15866 537457001305 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 537457001306 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 537457001307 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 537457001308 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 537457001309 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 537457001310 endonuclease IV; Provisional; Region: PRK01060 537457001311 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 537457001312 AP (apurinic/apyrimidinic) site pocket; other site 537457001313 DNA interaction; other site 537457001314 Metal-binding active site; metal-binding site 537457001315 NlpC/P60 family; Region: NLPC_P60; pfam00877 537457001316 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 537457001317 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 537457001318 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 537457001319 ligand binding site [chemical binding]; other site 537457001320 active site 537457001321 UGI interface [polypeptide binding]; other site 537457001322 catalytic site [active] 537457001323 Protein of unknown function (DUF535); Region: DUF535; pfam04393 537457001324 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 537457001325 catalytic triad [active] 537457001326 putative active site [active] 537457001327 Autotransporter beta-domain; Region: Autotransporter; smart00869 537457001328 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 537457001329 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 537457001330 ATP binding site [chemical binding]; other site 537457001331 putative Mg++ binding site [ion binding]; other site 537457001332 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 537457001333 nucleotide binding region [chemical binding]; other site 537457001334 ATP-binding site [chemical binding]; other site 537457001335 Helicase associated domain (HA2); Region: HA2; pfam04408 537457001336 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 537457001337 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 537457001338 Predicted membrane protein [Function unknown]; Region: COG2707 537457001339 GrpE; Region: GrpE; pfam01025 537457001340 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 537457001341 dimer interface [polypeptide binding]; other site 537457001342 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 537457001343 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 537457001344 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 537457001345 multidrug efflux protein; Reviewed; Region: PRK01766 537457001346 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 537457001347 cation binding site [ion binding]; other site 537457001348 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 537457001349 Part of AAA domain; Region: AAA_19; pfam13245 537457001350 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 537457001351 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 537457001352 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 537457001353 putative active site [active] 537457001354 catalytic triad [active] 537457001355 putative dimer interface [polypeptide binding]; other site 537457001356 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 537457001357 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 537457001358 Transporter associated domain; Region: CorC_HlyC; smart01091 537457001359 hypothetical protein; Provisional; Region: PRK01904 537457001360 hypothetical protein; Provisional; Region: PRK03641 537457001361 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 537457001362 amphipathic channel; other site 537457001363 Asn-Pro-Ala signature motifs; other site 537457001364 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 537457001365 Helix-turn-helix domain; Region: HTH_38; pfam13936 537457001366 Integrase core domain; Region: rve; pfam00665 537457001367 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 537457001368 amphipathic channel; other site 537457001369 Asn-Pro-Ala signature motifs; other site 537457001370 glycerol kinase; Provisional; Region: glpK; PRK00047 537457001371 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 537457001372 N- and C-terminal domain interface [polypeptide binding]; other site 537457001373 active site 537457001374 MgATP binding site [chemical binding]; other site 537457001375 catalytic site [active] 537457001376 metal binding site [ion binding]; metal-binding site 537457001377 glycerol binding site [chemical binding]; other site 537457001378 homotetramer interface [polypeptide binding]; other site 537457001379 homodimer interface [polypeptide binding]; other site 537457001380 FBP binding site [chemical binding]; other site 537457001381 protein IIAGlc interface [polypeptide binding]; other site 537457001382 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 537457001383 Found in ATP-dependent protease La (LON); Region: LON; smart00464 537457001384 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 537457001385 Walker A motif; other site 537457001386 ATP binding site [chemical binding]; other site 537457001387 Walker B motif; other site 537457001388 arginine finger; other site 537457001389 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 537457001390 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 537457001391 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 537457001392 putative substrate translocation pore; other site 537457001393 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 537457001394 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 537457001395 active site 537457001396 catalytic site [active] 537457001397 metal binding site [ion binding]; metal-binding site 537457001398 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 537457001399 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 537457001400 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 537457001401 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 537457001402 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 537457001403 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 537457001404 Cysteine-rich domain; Region: CCG; pfam02754 537457001405 Cysteine-rich domain; Region: CCG; pfam02754 537457001406 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 537457001407 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 537457001408 catalytic motif [active] 537457001409 Zn binding site [ion binding]; other site 537457001410 RibD C-terminal domain; Region: RibD_C; cl17279 537457001411 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 537457001412 Lumazine binding domain; Region: Lum_binding; pfam00677 537457001413 Lumazine binding domain; Region: Lum_binding; pfam00677 537457001414 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 537457001415 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 537457001416 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 537457001417 dimerization interface [polypeptide binding]; other site 537457001418 active site 537457001419 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 537457001420 homopentamer interface [polypeptide binding]; other site 537457001421 active site 537457001422 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 537457001423 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 537457001424 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 537457001425 KpsF/GutQ family protein; Region: kpsF; TIGR00393 537457001426 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 537457001427 putative active site [active] 537457001428 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 537457001429 aminopeptidase B; Provisional; Region: PRK05015 537457001430 Peptidase; Region: DUF3663; pfam12404 537457001431 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 537457001432 interface (dimer of trimers) [polypeptide binding]; other site 537457001433 Substrate-binding/catalytic site; other site 537457001434 Zn-binding sites [ion binding]; other site 537457001435 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 537457001436 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 537457001437 Sodium Bile acid symporter family; Region: SBF; pfam01758 537457001438 macrolide transporter subunit MacA; Provisional; Region: PRK11578 537457001439 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 537457001440 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 537457001441 carboxyltransferase (CT) interaction site; other site 537457001442 biotinylation site [posttranslational modification]; other site 537457001443 putative hydrolase; Provisional; Region: PRK10976 537457001444 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 537457001445 active site 537457001446 motif I; other site 537457001447 motif II; other site 537457001448 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 537457001449 2-isopropylmalate synthase; Validated; Region: PRK00915 537457001450 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 537457001451 active site 537457001452 catalytic residues [active] 537457001453 metal binding site [ion binding]; metal-binding site 537457001454 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 537457001455 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 537457001456 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 537457001457 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 537457001458 DNA binding residues [nucleotide binding] 537457001459 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 537457001460 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 537457001461 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 537457001462 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 537457001463 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 537457001464 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 537457001465 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 537457001466 acyl-activating enzyme (AAE) consensus motif; other site 537457001467 putative AMP binding site [chemical binding]; other site 537457001468 putative active site [active] 537457001469 putative CoA binding site [chemical binding]; other site 537457001470 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 537457001471 active site 537457001472 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 537457001473 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 537457001474 S-adenosylmethionine binding site [chemical binding]; other site 537457001475 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 537457001476 SurA N-terminal domain; Region: SurA_N; pfam09312 537457001477 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 537457001478 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 537457001479 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 537457001480 active site 537457001481 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 537457001482 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 537457001483 putative ribose interaction site [chemical binding]; other site 537457001484 putative ADP binding site [chemical binding]; other site 537457001485 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 537457001486 active site 537457001487 nucleotide binding site [chemical binding]; other site 537457001488 HIGH motif; other site 537457001489 KMSKS motif; other site 537457001490 GTP-binding protein Der; Reviewed; Region: PRK00093 537457001491 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 537457001492 G1 box; other site 537457001493 GTP/Mg2+ binding site [chemical binding]; other site 537457001494 Switch I region; other site 537457001495 G2 box; other site 537457001496 Switch II region; other site 537457001497 G3 box; other site 537457001498 G4 box; other site 537457001499 G5 box; other site 537457001500 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 537457001501 G1 box; other site 537457001502 GTP/Mg2+ binding site [chemical binding]; other site 537457001503 Switch I region; other site 537457001504 G2 box; other site 537457001505 G3 box; other site 537457001506 Switch II region; other site 537457001507 G4 box; other site 537457001508 G5 box; other site 537457001509 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 537457001510 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 537457001511 tRNA; other site 537457001512 putative tRNA binding site [nucleotide binding]; other site 537457001513 putative NADP binding site [chemical binding]; other site 537457001514 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 537457001515 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 537457001516 HD domain; Region: HD_4; pfam13328 537457001517 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 537457001518 synthetase active site [active] 537457001519 NTP binding site [chemical binding]; other site 537457001520 metal binding site [ion binding]; metal-binding site 537457001521 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 537457001522 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 537457001523 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 537457001524 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 537457001525 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 537457001526 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 537457001527 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 537457001528 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 537457001529 active site 537457001530 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 537457001531 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 537457001532 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 537457001533 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 537457001534 trimer interface [polypeptide binding]; other site 537457001535 active site 537457001536 UDP-GlcNAc binding site [chemical binding]; other site 537457001537 lipid binding site [chemical binding]; lipid-binding site 537457001538 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 537457001539 periplasmic chaperone; Provisional; Region: PRK10780 537457001540 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 537457001541 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 537457001542 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 537457001543 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 537457001544 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 537457001545 Surface antigen; Region: Bac_surface_Ag; pfam01103 537457001546 zinc metallopeptidase RseP; Provisional; Region: PRK10779 537457001547 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 537457001548 active site 537457001549 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 537457001550 protein binding site [polypeptide binding]; other site 537457001551 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 537457001552 putative substrate binding region [chemical binding]; other site 537457001553 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 537457001554 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 537457001555 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 537457001556 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 537457001557 catalytic residue [active] 537457001558 putative FPP diphosphate binding site; other site 537457001559 putative FPP binding hydrophobic cleft; other site 537457001560 dimer interface [polypeptide binding]; other site 537457001561 putative IPP diphosphate binding site; other site 537457001562 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 537457001563 fructokinase; Reviewed; Region: PRK09557 537457001564 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 537457001565 nucleotide binding site [chemical binding]; other site 537457001566 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 537457001567 active site 537457001568 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 537457001569 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 537457001570 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 537457001571 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 537457001572 putative metal binding site; other site 537457001573 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 537457001574 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 537457001575 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 537457001576 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 537457001577 putative active site [active] 537457001578 argininosuccinate synthase; Validated; Region: PRK05370 537457001579 argininosuccinate synthase; Provisional; Region: PRK13820 537457001580 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 537457001581 RNA/DNA hybrid binding site [nucleotide binding]; other site 537457001582 active site 537457001583 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 537457001584 Colicin V production protein; Region: Colicin_V; cl00567 537457001585 amidophosphoribosyltransferase; Provisional; Region: PRK09246 537457001586 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 537457001587 active site 537457001588 tetramer interface [polypeptide binding]; other site 537457001589 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 537457001590 active site 537457001591 glutamate dehydrogenase; Provisional; Region: PRK09414 537457001592 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 537457001593 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 537457001594 NAD(P) binding site [chemical binding]; other site 537457001595 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 537457001596 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 537457001597 Nucleoid-associated protein [General function prediction only]; Region: COG3081 537457001598 nucleoid-associated protein NdpA; Validated; Region: PRK00378 537457001599 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 537457001600 homotrimer interaction site [polypeptide binding]; other site 537457001601 putative active site [active] 537457001602 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 537457001603 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 537457001604 integrase; Provisional; Region: int; PHA02601 537457001605 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 537457001606 active site 537457001607 DNA binding site [nucleotide binding] 537457001608 Int/Topo IB signature motif; other site 537457001609 DNA repair and recombination protein RadA; Validated; Region: radA; PRK04301 537457001610 Protein of unknown function (DUF551); Region: DUF551; pfam04448 537457001611 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 537457001612 metal binding site [ion binding]; metal-binding site 537457001613 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 537457001614 non-specific DNA binding site [nucleotide binding]; other site 537457001615 salt bridge; other site 537457001616 sequence-specific DNA binding site [nucleotide binding]; other site 537457001617 Putative exonuclease, RdgC; Region: RdgC; pfam04381 537457001618 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 537457001619 putative trimer interface [polypeptide binding]; other site 537457001620 putative CoA binding site [chemical binding]; other site 537457001621 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 537457001622 putative trimer interface [polypeptide binding]; other site 537457001623 putative CoA binding site [chemical binding]; other site 537457001624 RecT family; Region: RecT; cl04285 537457001625 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 537457001626 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 537457001627 non-specific DNA binding site [nucleotide binding]; other site 537457001628 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 537457001629 salt bridge; other site 537457001630 sequence-specific DNA binding site [nucleotide binding]; other site 537457001631 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 537457001632 Catalytic site [active] 537457001633 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 537457001634 non-specific DNA binding site [nucleotide binding]; other site 537457001635 salt bridge; other site 537457001636 sequence-specific DNA binding site [nucleotide binding]; other site 537457001637 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 537457001638 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 537457001639 Replication protein P; Region: Phage_lambda_P; pfam06992 537457001640 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 537457001641 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 537457001642 Methyltransferase domain; Region: Methyltransf_26; pfam13659 537457001643 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 537457001644 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 537457001645 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 537457001646 Predicted chitinase [General function prediction only]; Region: COG3179 537457001647 catalytic residue [active] 537457001648 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 537457001649 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 537457001650 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 537457001651 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 537457001652 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 537457001653 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 537457001654 oligomer interface [polypeptide binding]; other site 537457001655 active site residues [active] 537457001656 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 537457001657 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 537457001658 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 537457001659 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 537457001660 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 537457001661 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 537457001662 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 537457001663 Phage-related minor tail protein [Function unknown]; Region: COG5281 537457001664 tape measure domain; Region: tape_meas_nterm; TIGR02675 537457001665 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 537457001666 Phage minor tail protein; Region: Phage_min_tail; cl01940 537457001667 Phage-related protein [Function unknown]; Region: gp18; COG4672 537457001668 Phage-related protein, tail component [Function unknown]; Region: COG4723 537457001669 Phage-related protein, tail component [Function unknown]; Region: COG4733 537457001670 Putative phage tail protein; Region: Phage-tail_3; pfam13550 537457001671 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 537457001672 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 537457001673 Fibronectin type III protein; Region: DUF3672; pfam12421 537457001674 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 537457001675 tartrate dehydrogenase; Region: TTC; TIGR02089 537457001676 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 537457001677 methionine sulfoxide reductase B; Provisional; Region: PRK00222 537457001678 SelR domain; Region: SelR; pfam01641 537457001679 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 537457001680 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 537457001681 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 537457001682 rod shape-determining protein MreB; Provisional; Region: PRK13927 537457001683 MreB and similar proteins; Region: MreB_like; cd10225 537457001684 nucleotide binding site [chemical binding]; other site 537457001685 Mg binding site [ion binding]; other site 537457001686 putative protofilament interaction site [polypeptide binding]; other site 537457001687 RodZ interaction site [polypeptide binding]; other site 537457001688 rod shape-determining protein MreC; Region: mreC; TIGR00219 537457001689 rod shape-determining protein MreC; Region: MreC; pfam04085 537457001690 rod shape-determining protein MreD; Region: MreD; cl01087 537457001691 recombination factor protein RarA; Reviewed; Region: PRK13342 537457001692 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 537457001693 Walker A motif; other site 537457001694 ATP binding site [chemical binding]; other site 537457001695 Walker B motif; other site 537457001696 arginine finger; other site 537457001697 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 537457001698 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 537457001699 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 537457001700 ABC-ATPase subunit interface; other site 537457001701 dimer interface [polypeptide binding]; other site 537457001702 putative PBP binding regions; other site 537457001703 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 537457001704 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 537457001705 putative active site [active] 537457001706 putative dimer interface [polypeptide binding]; other site 537457001707 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 537457001708 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 537457001709 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 537457001710 putative active site [active] 537457001711 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 537457001712 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 537457001713 trimer interface [polypeptide binding]; other site 537457001714 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 537457001715 trimer interface [polypeptide binding]; other site 537457001716 Haemagglutinin; Region: HIM; pfam05662 537457001717 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 537457001718 Helix-turn-helix domain; Region: HTH_38; pfam13936 537457001719 Integrase core domain; Region: rve; pfam00665 537457001720 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 537457001721 YadA-like C-terminal region; Region: YadA; pfam03895 537457001722 Uncharacterized conserved protein [Function unknown]; Region: COG1556 537457001723 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 537457001724 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 537457001725 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 537457001726 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 537457001727 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 537457001728 Cysteine-rich domain; Region: CCG; pfam02754 537457001729 Cysteine-rich domain; Region: CCG; pfam02754 537457001730 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 537457001731 L-lactate permease; Region: Lactate_perm; cl00701 537457001732 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 537457001733 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 537457001734 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 537457001735 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 537457001736 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 537457001737 ligand binding site [chemical binding]; other site 537457001738 calcium binding site [ion binding]; other site 537457001739 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 537457001740 CoA binding domain; Region: CoA_binding; pfam02629 537457001741 CoA-ligase; Region: Ligase_CoA; pfam00549 537457001742 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 537457001743 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 537457001744 CoA-ligase; Region: Ligase_CoA; pfam00549 537457001745 Protein of unknown function (DUF535); Region: DUF535; pfam04393 537457001746 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 537457001747 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 537457001748 E3 interaction surface; other site 537457001749 lipoyl attachment site [posttranslational modification]; other site 537457001750 e3 binding domain; Region: E3_binding; pfam02817 537457001751 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 537457001752 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 537457001753 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 537457001754 TPP-binding site [chemical binding]; other site 537457001755 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 537457001756 dimer interface [polypeptide binding]; other site 537457001757 PYR/PP interface [polypeptide binding]; other site 537457001758 TPP binding site [chemical binding]; other site 537457001759 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 537457001760 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 537457001761 putative peptidase; Provisional; Region: PRK11649 537457001762 Peptidase family M23; Region: Peptidase_M23; pfam01551 537457001763 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 537457001764 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 537457001765 dimerization domain [polypeptide binding]; other site 537457001766 dimer interface [polypeptide binding]; other site 537457001767 catalytic residues [active] 537457001768 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 537457001769 DHH family; Region: DHH; pfam01368 537457001770 DHHA1 domain; Region: DHHA1; pfam02272 537457001771 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 537457001772 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 537457001773 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 537457001774 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 537457001775 ligand binding site [chemical binding]; other site 537457001776 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 537457001777 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 537457001778 active site 537457001779 motif I; other site 537457001780 motif II; other site 537457001781 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 537457001782 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 537457001783 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 537457001784 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 537457001785 dimerization interface [polypeptide binding]; other site 537457001786 Histidine kinase; Region: HisKA_3; pfam07730 537457001787 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 537457001788 ATP binding site [chemical binding]; other site 537457001789 Mg2+ binding site [ion binding]; other site 537457001790 G-X-G motif; other site 537457001791 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 537457001792 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 537457001793 Coenzyme A binding pocket [chemical binding]; other site 537457001794 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 537457001795 active site 537457001796 dimerization interface [polypeptide binding]; other site 537457001797 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 537457001798 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 537457001799 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 537457001800 Potassium binding sites [ion binding]; other site 537457001801 Cesium cation binding sites [ion binding]; other site 537457001802 hypothetical protein; Provisional; Region: PRK05170 537457001803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 537457001804 malonic semialdehyde reductase; Provisional; Region: PRK10538 537457001805 NAD(P) binding site [chemical binding]; other site 537457001806 active site 537457001807 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 537457001808 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 537457001809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457001810 catalytic residue [active] 537457001811 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 537457001812 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 537457001813 substrate binding site [chemical binding]; other site 537457001814 active site 537457001815 catalytic residues [active] 537457001816 heterodimer interface [polypeptide binding]; other site 537457001817 DNA polymerase I; Provisional; Region: PRK05755 537457001818 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 537457001819 active site 537457001820 metal binding site 1 [ion binding]; metal-binding site 537457001821 putative 5' ssDNA interaction site; other site 537457001822 metal binding site 3; metal-binding site 537457001823 metal binding site 2 [ion binding]; metal-binding site 537457001824 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 537457001825 putative DNA binding site [nucleotide binding]; other site 537457001826 putative metal binding site [ion binding]; other site 537457001827 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 537457001828 active site 537457001829 catalytic site [active] 537457001830 substrate binding site [chemical binding]; other site 537457001831 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 537457001832 active site 537457001833 DNA binding site [nucleotide binding] 537457001834 catalytic site [active] 537457001835 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 537457001836 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 537457001837 Trp operon repressor; Provisional; Region: PRK01381 537457001838 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 537457001839 Transglycosylase; Region: Transgly; cl17702 537457001840 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 537457001841 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 537457001842 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 537457001843 gating phenylalanine in ion channel; other site 537457001844 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 537457001845 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 537457001846 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 537457001847 dimerization interface [polypeptide binding]; other site 537457001848 putative DNA binding site [nucleotide binding]; other site 537457001849 putative Zn2+ binding site [ion binding]; other site 537457001850 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 537457001851 dimer interface [polypeptide binding]; other site 537457001852 FMN binding site [chemical binding]; other site 537457001853 NADPH bind site [chemical binding]; other site 537457001854 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 537457001855 ATP-grasp domain; Region: ATP-grasp_4; cl17255 537457001856 Uncharacterized conserved protein [Function unknown]; Region: COG1434 537457001857 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 537457001858 putative active site [active] 537457001859 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 537457001860 Malic enzyme, N-terminal domain; Region: malic; pfam00390 537457001861 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 537457001862 putative NAD(P) binding site [chemical binding]; other site 537457001863 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 537457001864 5S rRNA interface [nucleotide binding]; other site 537457001865 CTC domain interface [polypeptide binding]; other site 537457001866 L16 interface [polypeptide binding]; other site 537457001867 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 537457001868 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 537457001869 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 537457001870 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 537457001871 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 537457001872 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457001873 ABC transporter signature motif; other site 537457001874 Walker B; other site 537457001875 D-loop; other site 537457001876 H-loop/switch region; other site 537457001877 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 537457001878 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 537457001879 dimer interface [polypeptide binding]; other site 537457001880 conserved gate region; other site 537457001881 ABC-ATPase subunit interface; other site 537457001882 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 537457001883 ATP binding site [chemical binding]; other site 537457001884 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 537457001885 substrate interface [chemical binding]; other site 537457001886 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 537457001887 thiS-thiF/thiG interaction site; other site 537457001888 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 537457001889 thiazole synthase; Reviewed; Region: thiG; PRK00208 537457001890 phosphate binding site [ion binding]; other site 537457001891 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 537457001892 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 537457001893 FeS/SAM binding site; other site 537457001894 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 537457001895 Putative transcription activator [Transcription]; Region: TenA; COG0819 537457001896 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; cl17432 537457001897 NMT1/THI5 like; Region: NMT1; pfam09084 537457001898 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 537457001899 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 537457001900 ATP binding site [chemical binding]; other site 537457001901 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 537457001902 thiamine phosphate binding site [chemical binding]; other site 537457001903 active site 537457001904 pyrophosphate binding site [ion binding]; other site 537457001905 GTP-binding protein LepA; Provisional; Region: PRK05433 537457001906 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 537457001907 G1 box; other site 537457001908 putative GEF interaction site [polypeptide binding]; other site 537457001909 GTP/Mg2+ binding site [chemical binding]; other site 537457001910 Switch I region; other site 537457001911 G2 box; other site 537457001912 G3 box; other site 537457001913 Switch II region; other site 537457001914 G4 box; other site 537457001915 G5 box; other site 537457001916 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 537457001917 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 537457001918 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 537457001919 signal peptidase I; Provisional; Region: PRK10861 537457001920 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 537457001921 Catalytic site [active] 537457001922 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 537457001923 ribonuclease III; Reviewed; Region: rnc; PRK00102 537457001924 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 537457001925 dimerization interface [polypeptide binding]; other site 537457001926 active site 537457001927 metal binding site [ion binding]; metal-binding site 537457001928 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 537457001929 dsRNA binding site [nucleotide binding]; other site 537457001930 GTPase Era; Reviewed; Region: era; PRK00089 537457001931 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 537457001932 G1 box; other site 537457001933 GTP/Mg2+ binding site [chemical binding]; other site 537457001934 Switch I region; other site 537457001935 G2 box; other site 537457001936 Switch II region; other site 537457001937 G3 box; other site 537457001938 G4 box; other site 537457001939 G5 box; other site 537457001940 KH domain; Region: KH_2; pfam07650 537457001941 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 537457001942 Recombination protein O N terminal; Region: RecO_N; pfam11967 537457001943 Recombination protein O C terminal; Region: RecO_C; pfam02565 537457001944 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 537457001945 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 537457001946 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 537457001947 binding surface 537457001948 TPR motif; other site 537457001949 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 537457001950 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 537457001951 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 537457001952 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 537457001953 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 537457001954 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 537457001955 ATP binding site [chemical binding]; other site 537457001956 Walker A motif; other site 537457001957 hexamer interface [polypeptide binding]; other site 537457001958 Walker B motif; other site 537457001959 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 537457001960 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 537457001961 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 537457001962 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 537457001963 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 537457001964 SAF domain; Region: SAF; pfam08666 537457001965 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 537457001966 Flp/Fap pilin component; Region: Flp_Fap; cl01585 537457001967 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 537457001968 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 537457001969 ATP binding site [chemical binding]; other site 537457001970 Mg++ binding site [ion binding]; other site 537457001971 motif III; other site 537457001972 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 537457001973 nucleotide binding region [chemical binding]; other site 537457001974 ATP-binding site [chemical binding]; other site 537457001975 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 537457001976 Domain of unknown function DUF87; Region: DUF87; pfam01935 537457001977 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 537457001978 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 537457001979 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 537457001980 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 537457001981 dimer interface [polypeptide binding]; other site 537457001982 conserved gate region; other site 537457001983 putative PBP binding loops; other site 537457001984 ABC-ATPase subunit interface; other site 537457001985 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 537457001986 dimer interface [polypeptide binding]; other site 537457001987 conserved gate region; other site 537457001988 putative PBP binding loops; other site 537457001989 ABC-ATPase subunit interface; other site 537457001990 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 537457001991 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 537457001992 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 537457001993 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 537457001994 ABC transporter; Region: ABC_tran; pfam00005 537457001995 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 537457001996 rRNA interaction site [nucleotide binding]; other site 537457001997 S8 interaction site; other site 537457001998 putative laminin-1 binding site; other site 537457001999 elongation factor Ts; Provisional; Region: tsf; PRK09377 537457002000 UBA/TS-N domain; Region: UBA; pfam00627 537457002001 Elongation factor TS; Region: EF_TS; pfam00889 537457002002 Elongation factor TS; Region: EF_TS; pfam00889 537457002003 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 537457002004 Sulfatase; Region: Sulfatase; pfam00884 537457002005 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 537457002006 putative nucleotide binding site [chemical binding]; other site 537457002007 uridine monophosphate binding site [chemical binding]; other site 537457002008 homohexameric interface [polypeptide binding]; other site 537457002009 ribosome recycling factor; Reviewed; Region: frr; PRK00083 537457002010 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 537457002011 hinge region; other site 537457002012 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 537457002013 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 537457002014 DNA-binding site [nucleotide binding]; DNA binding site 537457002015 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 537457002016 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457002017 homodimer interface [polypeptide binding]; other site 537457002018 catalytic residue [active] 537457002019 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 537457002020 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 537457002021 active site 537457002022 multimer interface [polypeptide binding]; other site 537457002023 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 537457002024 imidazole glycerol phosphate synthase, glutamine amidotransferase subunit; Region: IMP_synth_hisH; TIGR01855 537457002025 predicted active site [active] 537457002026 catalytic triad [active] 537457002027 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 537457002028 nucleoside/Zn binding site; other site 537457002029 dimer interface [polypeptide binding]; other site 537457002030 catalytic motif [active] 537457002031 helicase 45; Provisional; Region: PTZ00424 537457002032 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 537457002033 ATP binding site [chemical binding]; other site 537457002034 Mg++ binding site [ion binding]; other site 537457002035 motif III; other site 537457002036 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 537457002037 nucleotide binding region [chemical binding]; other site 537457002038 ATP-binding site [chemical binding]; other site 537457002039 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 537457002040 putative RNA binding site [nucleotide binding]; other site 537457002041 lipoprotein NlpI; Provisional; Region: PRK11189 537457002042 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 537457002043 binding surface 537457002044 TPR motif; other site 537457002045 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 537457002046 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 537457002047 trimer interface [polypeptide binding]; other site 537457002048 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 537457002049 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 537457002050 RNase E interface [polypeptide binding]; other site 537457002051 trimer interface [polypeptide binding]; other site 537457002052 active site 537457002053 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 537457002054 putative nucleic acid binding region [nucleotide binding]; other site 537457002055 G-X-X-G motif; other site 537457002056 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 537457002057 RNA binding site [nucleotide binding]; other site 537457002058 domain interface; other site 537457002059 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 537457002060 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 537457002061 CAP-like domain; other site 537457002062 active site 537457002063 primary dimer interface [polypeptide binding]; other site 537457002064 condesin subunit F; Provisional; Region: PRK05260 537457002065 condesin subunit E; Provisional; Region: PRK05256 537457002066 cell division protein MukB; Provisional; Region: mukB; PRK04863 537457002067 P-loop containing region of AAA domain; Region: AAA_29; cl17516 537457002068 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 537457002069 putative arabinose transporter; Provisional; Region: PRK03545 537457002070 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 537457002071 putative substrate translocation pore; other site 537457002072 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 537457002073 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 537457002074 Sulfatase; Region: Sulfatase; cl17466 537457002075 hypothetical protein; Provisional; Region: PRK13689 537457002076 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 537457002077 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 537457002078 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 537457002079 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 537457002080 HlyD family secretion protein; Region: HlyD_3; pfam13437 537457002081 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 537457002082 multidrug efflux protein; Reviewed; Region: PRK09579 537457002083 Protein export membrane protein; Region: SecD_SecF; cl14618 537457002084 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 537457002085 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 537457002086 Substrate binding site; other site 537457002087 Mg++ binding site; other site 537457002088 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 537457002089 active site 537457002090 substrate binding site [chemical binding]; other site 537457002091 CoA binding site [chemical binding]; other site 537457002092 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 537457002093 CHY zinc finger; Region: zf-CHY; pfam05495 537457002094 Domain of unknown function (DUF1919); Region: DUF1919; pfam08942 537457002095 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 537457002096 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 537457002097 active site 537457002098 substrate binding site [chemical binding]; other site 537457002099 metal binding site [ion binding]; metal-binding site 537457002100 GMP synthase; Reviewed; Region: guaA; PRK00074 537457002101 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 537457002102 AMP/PPi binding site [chemical binding]; other site 537457002103 candidate oxyanion hole; other site 537457002104 catalytic triad [active] 537457002105 potential glutamine specificity residues [chemical binding]; other site 537457002106 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 537457002107 ATP Binding subdomain [chemical binding]; other site 537457002108 Ligand Binding sites [chemical binding]; other site 537457002109 Dimerization subdomain; other site 537457002110 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 537457002111 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 537457002112 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 537457002113 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 537457002114 active site 537457002115 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 537457002116 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 537457002117 S-adenosylmethionine binding site [chemical binding]; other site 537457002118 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 537457002119 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 537457002120 Walker A motif; other site 537457002121 ATP binding site [chemical binding]; other site 537457002122 Walker B motif; other site 537457002123 arginine finger; other site 537457002124 Peptidase family M41; Region: Peptidase_M41; pfam01434 537457002125 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 537457002126 aromatic amino acid transport protein; Region: araaP; TIGR00837 537457002127 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 537457002128 aromatic amino acid transport protein; Region: araaP; TIGR00837 537457002129 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 537457002130 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 537457002131 metal binding triad; other site 537457002132 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 537457002133 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 537457002134 Zn2+ binding site [ion binding]; other site 537457002135 Mg2+ binding site [ion binding]; other site 537457002136 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 537457002137 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 537457002138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 537457002139 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 537457002140 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 537457002141 23S rRNA interface [nucleotide binding]; other site 537457002142 L3 interface [polypeptide binding]; other site 537457002143 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 537457002144 hypothetical protein; Validated; Region: PRK02101 537457002145 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 537457002146 Cation efflux family; Region: Cation_efflux; cl00316 537457002147 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 537457002148 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 537457002149 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 537457002150 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 537457002151 dimer interface [polypeptide binding]; other site 537457002152 FMN binding site [chemical binding]; other site 537457002153 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 537457002154 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 537457002155 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 537457002156 dimer interface [polypeptide binding]; other site 537457002157 motif 1; other site 537457002158 active site 537457002159 motif 2; other site 537457002160 motif 3; other site 537457002161 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 537457002162 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 537457002163 putative tRNA-binding site [nucleotide binding]; other site 537457002164 B3/4 domain; Region: B3_4; pfam03483 537457002165 tRNA synthetase B5 domain; Region: B5; smart00874 537457002166 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 537457002167 dimer interface [polypeptide binding]; other site 537457002168 motif 1; other site 537457002169 motif 3; other site 537457002170 motif 2; other site 537457002171 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 537457002172 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 537457002173 IHF dimer interface [polypeptide binding]; other site 537457002174 IHF - DNA interface [nucleotide binding]; other site 537457002175 NlpC/P60 family; Region: NLPC_P60; pfam00877 537457002176 putative transposase OrfB; Reviewed; Region: PHA02517 537457002177 HTH-like domain; Region: HTH_21; pfam13276 537457002178 Integrase core domain; Region: rve; pfam00665 537457002179 Integrase core domain; Region: rve_2; pfam13333 537457002180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 537457002181 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457002182 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457002183 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 537457002184 AAA domain; Region: AAA_26; pfam13500 537457002185 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 537457002186 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 537457002187 ribonuclease D; Provisional; Region: PRK10829 537457002188 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 537457002189 catalytic site [active] 537457002190 putative active site [active] 537457002191 putative substrate binding site [chemical binding]; other site 537457002192 HRDC domain; Region: HRDC; pfam00570 537457002193 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 537457002194 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 537457002195 dimerization interface [polypeptide binding]; other site 537457002196 putative DNA binding site [nucleotide binding]; other site 537457002197 putative Zn2+ binding site [ion binding]; other site 537457002198 AsnC family; Region: AsnC_trans_reg; pfam01037 537457002199 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 537457002200 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 537457002201 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 537457002202 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 537457002203 Predicted metalloprotease [General function prediction only]; Region: COG2321 537457002204 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 537457002205 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 537457002206 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 537457002207 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 537457002208 Glycoprotease family; Region: Peptidase_M22; pfam00814 537457002209 thymidine kinase; Provisional; Region: PRK04296 537457002210 Protein of unknown function (DUF904); Region: DUF904; pfam06005 537457002211 fructose 1,6-bisphosphatase II; Reviewed; Region: glpX; PRK09479 537457002212 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 537457002213 active site 537457002214 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 537457002215 Uncharacterized conserved protein [Function unknown]; Region: COG0327 537457002216 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 537457002217 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 537457002218 Walker A/P-loop; other site 537457002219 ATP binding site [chemical binding]; other site 537457002220 Q-loop/lid; other site 537457002221 ABC transporter signature motif; other site 537457002222 Walker B; other site 537457002223 D-loop; other site 537457002224 H-loop/switch region; other site 537457002225 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 537457002226 FtsX-like permease family; Region: FtsX; pfam02687 537457002227 two-component sensor protein; Provisional; Region: cpxA; PRK09470 537457002228 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 537457002229 dimerization interface [polypeptide binding]; other site 537457002230 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 537457002231 dimer interface [polypeptide binding]; other site 537457002232 phosphorylation site [posttranslational modification] 537457002233 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 537457002234 ATP binding site [chemical binding]; other site 537457002235 Mg2+ binding site [ion binding]; other site 537457002236 G-X-G motif; other site 537457002237 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 537457002238 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 537457002239 active site 537457002240 phosphorylation site [posttranslational modification] 537457002241 intermolecular recognition site; other site 537457002242 dimerization interface [polypeptide binding]; other site 537457002243 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 537457002244 DNA binding site [nucleotide binding] 537457002245 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 537457002246 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 537457002247 homodimer interface [polypeptide binding]; other site 537457002248 metal binding site [ion binding]; metal-binding site 537457002249 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 537457002250 homodimer interface [polypeptide binding]; other site 537457002251 active site 537457002252 putative chemical substrate binding site [chemical binding]; other site 537457002253 metal binding site [ion binding]; metal-binding site 537457002254 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 537457002255 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 537457002256 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 537457002257 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 537457002258 ribosome maturation protein RimP; Reviewed; Region: PRK00092 537457002259 Sm and related proteins; Region: Sm_like; cl00259 537457002260 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 537457002261 putative oligomer interface [polypeptide binding]; other site 537457002262 putative RNA binding site [nucleotide binding]; other site 537457002263 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 537457002264 NusA N-terminal domain; Region: NusA_N; pfam08529 537457002265 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 537457002266 RNA binding site [nucleotide binding]; other site 537457002267 homodimer interface [polypeptide binding]; other site 537457002268 NusA-like KH domain; Region: KH_5; pfam13184 537457002269 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 537457002270 G-X-X-G motif; other site 537457002271 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 537457002272 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 537457002273 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 537457002274 translation initiation factor IF-2; Region: IF-2; TIGR00487 537457002275 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 537457002276 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 537457002277 G1 box; other site 537457002278 putative GEF interaction site [polypeptide binding]; other site 537457002279 GTP/Mg2+ binding site [chemical binding]; other site 537457002280 Switch I region; other site 537457002281 G2 box; other site 537457002282 G3 box; other site 537457002283 Switch II region; other site 537457002284 G4 box; other site 537457002285 G5 box; other site 537457002286 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 537457002287 Translation-initiation factor 2; Region: IF-2; pfam11987 537457002288 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 537457002289 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 537457002290 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 537457002291 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 537457002292 RNA binding site [nucleotide binding]; other site 537457002293 active site 537457002294 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 537457002295 Transglycosylase SLT domain; Region: SLT_2; pfam13406 537457002296 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 537457002297 N-acetyl-D-glucosamine binding site [chemical binding]; other site 537457002298 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 537457002299 phosphate acetyltransferase; Reviewed; Region: PRK05632 537457002300 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 537457002301 DRTGG domain; Region: DRTGG; pfam07085 537457002302 phosphate acetyltransferase; Region: pta; TIGR00651 537457002303 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 537457002304 propionate/acetate kinase; Provisional; Region: PRK12379 537457002305 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 537457002306 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 537457002307 active site 537457002308 metal binding site [ion binding]; metal-binding site 537457002309 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 537457002310 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 537457002311 active site 537457002312 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 537457002313 trimer interface [polypeptide binding]; other site 537457002314 eyelet of channel; other site 537457002315 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 537457002316 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 537457002317 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 537457002318 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 537457002319 active site 537457002320 tetramer interface; other site 537457002321 phosphomannomutase CpsG; Provisional; Region: PRK15414 537457002322 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 537457002323 active site 537457002324 substrate binding site [chemical binding]; other site 537457002325 metal binding site [ion binding]; metal-binding site 537457002326 carbon storage regulator; Provisional; Region: PRK01712 537457002327 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 537457002328 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 537457002329 motif 1; other site 537457002330 active site 537457002331 motif 2; other site 537457002332 motif 3; other site 537457002333 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 537457002334 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 537457002335 DHHA1 domain; Region: DHHA1; pfam02272 537457002336 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 537457002337 Ligand Binding Site [chemical binding]; other site 537457002338 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 537457002339 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 537457002340 ligand binding site [chemical binding]; other site 537457002341 flexible hinge region; other site 537457002342 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 537457002343 putative switch regulator; other site 537457002344 non-specific DNA interactions [nucleotide binding]; other site 537457002345 DNA binding site [nucleotide binding] 537457002346 sequence specific DNA binding site [nucleotide binding]; other site 537457002347 putative cAMP binding site [chemical binding]; other site 537457002348 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 537457002349 stringent starvation protein A; Provisional; Region: sspA; PRK09481 537457002350 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 537457002351 C-terminal domain interface [polypeptide binding]; other site 537457002352 putative GSH binding site (G-site) [chemical binding]; other site 537457002353 dimer interface [polypeptide binding]; other site 537457002354 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 537457002355 dimer interface [polypeptide binding]; other site 537457002356 N-terminal domain interface [polypeptide binding]; other site 537457002357 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 537457002358 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 537457002359 active site 537457002360 homotetramer interface [polypeptide binding]; other site 537457002361 homodimer interface [polypeptide binding]; other site 537457002362 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 537457002363 ATP-grasp domain; Region: ATP-grasp; pfam02222 537457002364 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 537457002365 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 537457002366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457002367 homodimer interface [polypeptide binding]; other site 537457002368 catalytic residue [active] 537457002369 proline aminopeptidase P II; Provisional; Region: PRK10879 537457002370 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 537457002371 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 537457002372 active site 537457002373 AAA domain; Region: AAA_14; pfam13173 537457002374 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 537457002375 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 537457002376 oligomeric interface; other site 537457002377 putative active site [active] 537457002378 homodimer interface [polypeptide binding]; other site 537457002379 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 537457002380 excinuclease ABC subunit B; Provisional; Region: PRK05298 537457002381 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 537457002382 ATP binding site [chemical binding]; other site 537457002383 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 537457002384 nucleotide binding region [chemical binding]; other site 537457002385 ATP-binding site [chemical binding]; other site 537457002386 Ultra-violet resistance protein B; Region: UvrB; pfam12344 537457002387 Imelysin; Region: Peptidase_M75; pfam09375 537457002388 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 537457002389 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 537457002390 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 537457002391 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 537457002392 active site 537457002393 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 537457002394 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 537457002395 putative active site [active] 537457002396 exonuclease I; Provisional; Region: sbcB; PRK11779 537457002397 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 537457002398 active site 537457002399 catalytic site [active] 537457002400 substrate binding site [chemical binding]; other site 537457002401 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 537457002402 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 537457002403 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 537457002404 putative ion selectivity filter; other site 537457002405 putative pore gating glutamate residue; other site 537457002406 putative H+/Cl- coupling transport residue; other site 537457002407 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 537457002408 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 537457002409 putative dimer interface [polypeptide binding]; other site 537457002410 putative anticodon binding site; other site 537457002411 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 537457002412 homodimer interface [polypeptide binding]; other site 537457002413 motif 1; other site 537457002414 motif 2; other site 537457002415 active site 537457002416 motif 3; other site 537457002417 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 537457002418 FeS/SAM binding site; other site 537457002419 Radical SAM superfamily; Region: Radical_SAM; pfam04055 537457002420 elongation factor P; Validated; Region: PRK00529 537457002421 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 537457002422 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 537457002423 RNA binding site [nucleotide binding]; other site 537457002424 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 537457002425 RNA binding site [nucleotide binding]; other site 537457002426 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 537457002427 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 537457002428 active site 537457002429 HIGH motif; other site 537457002430 nucleotide binding site [chemical binding]; other site 537457002431 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 537457002432 KMSKS motif; other site 537457002433 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 537457002434 putative transporter; Provisional; Region: PRK10504 537457002435 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 537457002436 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 537457002437 lytic murein transglycosylase; Provisional; Region: PRK11619 537457002438 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 537457002439 N-acetyl-D-glucosamine binding site [chemical binding]; other site 537457002440 catalytic residue [active] 537457002441 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 537457002442 active site 537457002443 cystathionine gamma-synthase; Reviewed; Region: PRK08247 537457002444 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 537457002445 homodimer interface [polypeptide binding]; other site 537457002446 substrate-cofactor binding pocket; other site 537457002447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457002448 catalytic residue [active] 537457002449 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 537457002450 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 537457002451 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 537457002452 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 537457002453 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 537457002454 Protein of unknown function (DUF423); Region: DUF423; cl01008 537457002455 D-lactate dehydrogenase; Provisional; Region: PRK11183 537457002456 FAD binding domain; Region: FAD_binding_4; pfam01565 537457002457 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 537457002458 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 537457002459 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 537457002460 molybdopterin cofactor binding site [chemical binding]; other site 537457002461 substrate binding site [chemical binding]; other site 537457002462 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 537457002463 molybdopterin cofactor binding site; other site 537457002464 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 537457002465 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 537457002466 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 537457002467 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 537457002468 FeS/SAM binding site; other site 537457002469 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 537457002470 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 537457002471 trimer interface [polypeptide binding]; other site 537457002472 dimer interface [polypeptide binding]; other site 537457002473 putative active site [active] 537457002474 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 537457002475 MoaE interaction surface [polypeptide binding]; other site 537457002476 MoeB interaction surface [polypeptide binding]; other site 537457002477 thiocarboxylated glycine; other site 537457002478 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 537457002479 MoaE homodimer interface [polypeptide binding]; other site 537457002480 MoaD interaction [polypeptide binding]; other site 537457002481 active site residues [active] 537457002482 metal-binding heat shock protein; Provisional; Region: PRK00016 537457002483 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 537457002484 Helicase; Region: Helicase_RecD; pfam05127 537457002485 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 537457002486 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 537457002487 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 537457002488 active site 537457002489 interdomain interaction site; other site 537457002490 putative metal-binding site [ion binding]; other site 537457002491 nucleotide binding site [chemical binding]; other site 537457002492 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 537457002493 domain I; other site 537457002494 DNA binding groove [nucleotide binding] 537457002495 phosphate binding site [ion binding]; other site 537457002496 domain II; other site 537457002497 domain III; other site 537457002498 nucleotide binding site [chemical binding]; other site 537457002499 catalytic site [active] 537457002500 domain IV; other site 537457002501 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 537457002502 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 537457002503 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 537457002504 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 537457002505 Transcriptional regulator [Transcription]; Region: LysR; COG0583 537457002506 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457002507 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 537457002508 putative effector binding pocket; other site 537457002509 dimerization interface [polypeptide binding]; other site 537457002510 N-acetylglutamate synthase; Validated; Region: PRK05279 537457002511 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 537457002512 putative feedback inhibition sensing region; other site 537457002513 putative nucleotide binding site [chemical binding]; other site 537457002514 putative substrate binding site [chemical binding]; other site 537457002515 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 537457002516 Coenzyme A binding pocket [chemical binding]; other site 537457002517 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 537457002518 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 537457002519 hinge; other site 537457002520 active site 537457002521 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 537457002522 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 537457002523 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457002524 homodimer interface [polypeptide binding]; other site 537457002525 catalytic residue [active] 537457002526 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 537457002527 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 537457002528 homodimer interface [polypeptide binding]; other site 537457002529 substrate-cofactor binding pocket; other site 537457002530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457002531 catalytic residue [active] 537457002532 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 537457002533 homodimer interface [polypeptide binding]; other site 537457002534 substrate-cofactor binding pocket; other site 537457002535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457002536 catalytic residue [active] 537457002537 DEAD-like helicases superfamily; Region: DEXDc; smart00487 537457002538 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 537457002539 ATP binding site [chemical binding]; other site 537457002540 putative Mg++ binding site [ion binding]; other site 537457002541 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 537457002542 nucleotide binding region [chemical binding]; other site 537457002543 ATP-binding site [chemical binding]; other site 537457002544 DEAD-like helicases superfamily; Region: DEXDc; smart00487 537457002545 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 537457002546 ATP binding site [chemical binding]; other site 537457002547 putative Mg++ binding site [ion binding]; other site 537457002548 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 537457002549 DNA methylase; Region: N6_N4_Mtase; cl17433 537457002550 DNA methylase; Region: N6_N4_Mtase; cl17433 537457002551 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 537457002552 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 537457002553 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 537457002554 putative active site [active] 537457002555 Domain of unknown function (DUF386); Region: DUF386; pfam04074 537457002556 exopolyphosphatase; Provisional; Region: PRK10854 537457002557 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 537457002558 nucleotide binding site [chemical binding]; other site 537457002559 hypothetical protein; Provisional; Region: PRK05423 537457002560 aspartate kinase III; Validated; Region: PRK09084 537457002561 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 537457002562 nucleotide binding site [chemical binding]; other site 537457002563 substrate binding site [chemical binding]; other site 537457002564 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 537457002565 dimer interface [polypeptide binding]; other site 537457002566 lysine allosteric regulatory site; other site 537457002567 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 537457002568 dimer interface [polypeptide binding]; other site 537457002569 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 537457002570 ATP cone domain; Region: ATP-cone; pfam03477 537457002571 YcgL domain; Region: YcgL; pfam05166 537457002572 replicative DNA helicase; Validated; Region: PRK06904 537457002573 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 537457002574 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 537457002575 Walker A motif; other site 537457002576 ATP binding site [chemical binding]; other site 537457002577 Walker B motif; other site 537457002578 DNA binding loops [nucleotide binding] 537457002579 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 537457002580 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 537457002581 putative ligand binding residues [chemical binding]; other site 537457002582 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 537457002583 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 537457002584 ABC-ATPase subunit interface; other site 537457002585 dimer interface [polypeptide binding]; other site 537457002586 putative PBP binding regions; other site 537457002587 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 537457002588 ABC-ATPase subunit interface; other site 537457002589 dimer interface [polypeptide binding]; other site 537457002590 putative PBP binding regions; other site 537457002591 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 537457002592 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 537457002593 Walker A/P-loop; other site 537457002594 ATP binding site [chemical binding]; other site 537457002595 Q-loop/lid; other site 537457002596 ABC transporter signature motif; other site 537457002597 Walker B; other site 537457002598 D-loop; other site 537457002599 H-loop/switch region; other site 537457002600 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 537457002601 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 537457002602 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 537457002603 SH3 domain-containing protein; Provisional; Region: PRK10884 537457002604 Bacterial SH3 domain homologues; Region: SH3b; smart00287 537457002605 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 537457002606 CPxP motif; other site 537457002607 Hemerythrin-like domain; Region: Hr-like; cd12108 537457002608 Fe binding site [ion binding]; other site 537457002609 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 537457002610 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 537457002611 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 537457002612 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 537457002613 DNA-binding site [nucleotide binding]; DNA binding site 537457002614 RNA-binding motif; other site 537457002615 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 537457002616 active site clefts [active] 537457002617 zinc binding site [ion binding]; other site 537457002618 dimer interface [polypeptide binding]; other site 537457002619 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 537457002620 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 537457002621 PYR/PP interface [polypeptide binding]; other site 537457002622 dimer interface [polypeptide binding]; other site 537457002623 TPP binding site [chemical binding]; other site 537457002624 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 537457002625 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 537457002626 TPP-binding site [chemical binding]; other site 537457002627 dimer interface [polypeptide binding]; other site 537457002628 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 537457002629 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 537457002630 putative valine binding site [chemical binding]; other site 537457002631 dimer interface [polypeptide binding]; other site 537457002632 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 537457002633 peptidase PmbA; Provisional; Region: PRK11040 537457002634 hypothetical protein; Provisional; Region: PRK05255 537457002635 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 537457002636 aromatic acid decarboxylase; Validated; Region: PRK05920 537457002637 Flavoprotein; Region: Flavoprotein; pfam02441 537457002638 Protein of unknown function (DUF554); Region: DUF554; pfam04474 537457002639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 537457002640 translation initiation factor Sui1; Validated; Region: PRK06824 537457002641 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 537457002642 putative rRNA binding site [nucleotide binding]; other site 537457002643 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 537457002644 active site 537457002645 dimer interface [polypeptide binding]; other site 537457002646 tetratricopeptide repeat protein; Provisional; Region: PRK11788 537457002647 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 537457002648 binding surface 537457002649 TPR motif; other site 537457002650 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 537457002651 TPR motif; other site 537457002652 binding surface 537457002653 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 537457002654 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 537457002655 IHF dimer interface [polypeptide binding]; other site 537457002656 IHF - DNA interface [nucleotide binding]; other site 537457002657 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 537457002658 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 537457002659 RNA binding site [nucleotide binding]; other site 537457002660 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 537457002661 RNA binding site [nucleotide binding]; other site 537457002662 S1_RPS1_repeat_ec3: 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_ec3; cd05688 537457002663 RNA binding site [nucleotide binding]; other site 537457002664 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 537457002665 RNA binding site [nucleotide binding]; other site 537457002666 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 537457002667 RNA binding site [nucleotide binding]; other site 537457002668 S1_RPS1_repeat_ec6: 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_ec6; cd05691 537457002669 RNA binding site [nucleotide binding]; other site 537457002670 cytidylate kinase; Provisional; Region: cmk; PRK00023 537457002671 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 537457002672 CMP-binding site; other site 537457002673 The sites determining sugar specificity; other site 537457002674 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 537457002675 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 537457002676 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 537457002677 DNA topoisomerase III; Provisional; Region: PRK07726 537457002678 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 537457002679 active site 537457002680 putative interdomain interaction site [polypeptide binding]; other site 537457002681 putative metal-binding site [ion binding]; other site 537457002682 putative nucleotide binding site [chemical binding]; other site 537457002683 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 537457002684 domain I; other site 537457002685 DNA binding groove [nucleotide binding] 537457002686 phosphate binding site [ion binding]; other site 537457002687 domain II; other site 537457002688 domain III; other site 537457002689 nucleotide binding site [chemical binding]; other site 537457002690 catalytic site [active] 537457002691 domain IV; other site 537457002692 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 537457002693 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 537457002694 active site 537457002695 dimer interface [polypeptide binding]; other site 537457002696 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 537457002697 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 537457002698 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 537457002699 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 537457002700 Tetramer interface [polypeptide binding]; other site 537457002701 active site 537457002702 FMN-binding site [chemical binding]; other site 537457002703 hypothetical protein; Provisional; Region: PRK11281 537457002704 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 537457002705 Mechanosensitive ion channel; Region: MS_channel; pfam00924 537457002706 hypothetical protein; Provisional; Region: PRK11281 537457002707 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 537457002708 Mechanosensitive ion channel; Region: MS_channel; pfam00924 537457002709 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 537457002710 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 537457002711 acyl-activating enzyme (AAE) consensus motif; other site 537457002712 putative AMP binding site [chemical binding]; other site 537457002713 putative active site [active] 537457002714 putative CoA binding site [chemical binding]; other site 537457002715 replication initiation regulator SeqA; Provisional; Region: PRK11187 537457002716 acyl-CoA esterase; Provisional; Region: PRK10673 537457002717 PGAP1-like protein; Region: PGAP1; pfam07819 537457002718 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 537457002719 S-adenosylmethionine binding site [chemical binding]; other site 537457002720 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 537457002721 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 537457002722 NAD binding site [chemical binding]; other site 537457002723 homotetramer interface [polypeptide binding]; other site 537457002724 homodimer interface [polypeptide binding]; other site 537457002725 substrate binding site [chemical binding]; other site 537457002726 active site 537457002727 Protein of unknown function (DUF497); Region: DUF497; cl01108 537457002728 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 537457002729 exoribonuclease II; Provisional; Region: PRK05054 537457002730 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 537457002731 RNB domain; Region: RNB; pfam00773 537457002732 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 537457002733 RNA binding site [nucleotide binding]; other site 537457002734 LrgA family; Region: LrgA; cl00608 537457002735 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 537457002736 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 537457002737 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 537457002738 active site 537457002739 metal binding site [ion binding]; metal-binding site 537457002740 integrase; Provisional; Region: PRK09692 537457002741 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 537457002742 active site 537457002743 Int/Topo IB signature motif; other site 537457002744 D5 N terminal like; Region: D5_N; pfam08706 537457002745 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 537457002746 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 537457002747 Ash protein family; Region: Phage_ASH; pfam10554 537457002748 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 537457002749 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 537457002750 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 537457002751 Phage terminase, small subunit; Region: Terminase_4; cl01525 537457002752 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 537457002753 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 537457002754 active site 537457002755 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 537457002756 oligomerization interface [polypeptide binding]; other site 537457002757 Phage-related protein [Function unknown]; Region: COG4695 537457002758 Phage portal protein; Region: Phage_portal; pfam04860 537457002759 Phage head maturation protease [General function prediction only]; Region: COG3740 537457002760 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 537457002761 Phage capsid family; Region: Phage_capsid; pfam05065 537457002762 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 537457002763 Methyltransferase domain; Region: Methyltransf_31; pfam13847 537457002764 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 537457002765 S-adenosylmethionine binding site [chemical binding]; other site 537457002766 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 537457002767 Domain of unknown function DUF20; Region: UPF0118; pfam01594 537457002768 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 537457002769 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 537457002770 phosphate binding site [ion binding]; other site 537457002771 putative substrate binding pocket [chemical binding]; other site 537457002772 dimer interface [polypeptide binding]; other site 537457002773 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 537457002774 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 537457002775 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 537457002776 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 537457002777 Competence protein; Region: Competence; pfam03772 537457002778 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 537457002779 serine/threonine transporter SstT; Provisional; Region: PRK13628 537457002780 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 537457002781 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 537457002782 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 537457002783 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 537457002784 active site 537457002785 metal binding site [ion binding]; metal-binding site 537457002786 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 537457002787 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 537457002788 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 537457002789 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 537457002790 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 537457002791 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 537457002792 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 537457002793 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 537457002794 E3 interaction surface; other site 537457002795 lipoyl attachment site [posttranslational modification]; other site 537457002796 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 537457002797 E3 interaction surface; other site 537457002798 lipoyl attachment site [posttranslational modification]; other site 537457002799 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 537457002800 E3 interaction surface; other site 537457002801 lipoyl attachment site [posttranslational modification]; other site 537457002802 e3 binding domain; Region: E3_binding; pfam02817 537457002803 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 537457002804 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 537457002805 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 537457002806 dimer interface [polypeptide binding]; other site 537457002807 TPP-binding site [chemical binding]; other site 537457002808 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 537457002809 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 537457002810 quinone interaction residues [chemical binding]; other site 537457002811 active site 537457002812 catalytic residues [active] 537457002813 FMN binding site [chemical binding]; other site 537457002814 substrate binding site [chemical binding]; other site 537457002815 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 537457002816 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 537457002817 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 537457002818 active site 537457002819 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 537457002820 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 537457002821 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 537457002822 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 537457002823 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 537457002824 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 537457002825 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 537457002826 Walker A/P-loop; other site 537457002827 ATP binding site [chemical binding]; other site 537457002828 Q-loop/lid; other site 537457002829 ABC transporter signature motif; other site 537457002830 Walker B; other site 537457002831 D-loop; other site 537457002832 H-loop/switch region; other site 537457002833 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 537457002834 LrgA family; Region: LrgA; cl00608 537457002835 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 537457002836 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 537457002837 ATP binding site [chemical binding]; other site 537457002838 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 537457002839 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 537457002840 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 537457002841 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 537457002842 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 537457002843 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 537457002844 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 537457002845 dimer interface [polypeptide binding]; other site 537457002846 ssDNA binding site [nucleotide binding]; other site 537457002847 tetramer (dimer of dimers) interface [polypeptide binding]; other site 537457002848 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 537457002849 GIY-YIG motif/motif A; other site 537457002850 putative active site [active] 537457002851 putative metal binding site [ion binding]; other site 537457002852 Nuclease-related domain; Region: NERD; pfam08378 537457002853 Family description; Region: UvrD_C_2; pfam13538 537457002854 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 537457002855 Archaeal ATPase; Region: Arch_ATPase; pfam01637 537457002856 Walker A motif; other site 537457002857 ATP binding site [chemical binding]; other site 537457002858 Walker B motif; other site 537457002859 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 537457002860 Transcriptional regulator [Transcription]; Region: LysR; COG0583 537457002861 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457002862 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 537457002863 dimerization interface [polypeptide binding]; other site 537457002864 putative effector binding pocket; other site 537457002865 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 537457002866 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 537457002867 FMN binding site [chemical binding]; other site 537457002868 substrate binding site [chemical binding]; other site 537457002869 putative catalytic residue [active] 537457002870 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 537457002871 Major Facilitator Superfamily; Region: MFS_1; pfam07690 537457002872 putative substrate translocation pore; other site 537457002873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 537457002874 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 537457002875 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 537457002876 Walker A/P-loop; other site 537457002877 ATP binding site [chemical binding]; other site 537457002878 Q-loop/lid; other site 537457002879 ABC transporter signature motif; other site 537457002880 Walker B; other site 537457002881 D-loop; other site 537457002882 H-loop/switch region; other site 537457002883 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 537457002884 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 537457002885 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 537457002886 putative PBP binding loops; other site 537457002887 dimer interface [polypeptide binding]; other site 537457002888 ABC-ATPase subunit interface; other site 537457002889 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 537457002890 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 537457002891 putative PBP binding loops; other site 537457002892 dimer interface [polypeptide binding]; other site 537457002893 ABC-ATPase subunit interface; other site 537457002894 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 537457002895 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 537457002896 peptide binding site [polypeptide binding]; other site 537457002897 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 537457002898 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 537457002899 Walker A motif; other site 537457002900 ATP binding site [chemical binding]; other site 537457002901 Walker B motif; other site 537457002902 arginine finger; other site 537457002903 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 537457002904 dimer interface [polypeptide binding]; other site 537457002905 active site 537457002906 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 537457002907 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_ATP; cd00484 537457002908 active site 537457002909 substrate-binding site [chemical binding]; other site 537457002910 metal-binding site [ion binding] 537457002911 ATP binding site [chemical binding]; other site 537457002912 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 537457002913 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 537457002914 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 537457002915 substrate binding site; other site 537457002916 dimer interface; other site 537457002917 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 537457002918 homotrimer interaction site [polypeptide binding]; other site 537457002919 zinc binding site [ion binding]; other site 537457002920 CDP-binding sites; other site 537457002921 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 537457002922 Sulfatase; Region: Sulfatase; pfam00884 537457002923 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 537457002924 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 537457002925 MOSC domain; Region: MOSC; pfam03473 537457002926 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 537457002927 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 537457002928 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 537457002929 substrate binding pocket [chemical binding]; other site 537457002930 chain length determination region; other site 537457002931 substrate-Mg2+ binding site; other site 537457002932 catalytic residues [active] 537457002933 aspartate-rich region 1; other site 537457002934 active site lid residues [active] 537457002935 aspartate-rich region 2; other site 537457002936 Protein of unknown function, DUF486; Region: DUF486; cl01236 537457002937 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 537457002938 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 537457002939 dimer interface [polypeptide binding]; other site 537457002940 putative anticodon binding site; other site 537457002941 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 537457002942 motif 1; other site 537457002943 active site 537457002944 motif 2; other site 537457002945 motif 3; other site 537457002946 ribonuclease G; Provisional; Region: PRK11712 537457002947 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 537457002948 homodimer interface [polypeptide binding]; other site 537457002949 oligonucleotide binding site [chemical binding]; other site 537457002950 RNB domain; Region: RNB; pfam00773 537457002951 uncharacterized domain; Region: TIGR00702 537457002952 YcaO-like family; Region: YcaO; pfam02624 537457002953 Methyltransferase domain; Region: Methyltransf_23; pfam13489 537457002954 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 537457002955 S-adenosylmethionine binding site [chemical binding]; other site 537457002956 murein transglycosylase A; Provisional; Region: mltA; PRK11162 537457002957 MltA specific insert domain; Region: MltA; smart00925 537457002958 3D domain; Region: 3D; pfam06725 537457002959 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 537457002960 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 537457002961 generic binding surface II; other site 537457002962 generic binding surface I; other site 537457002963 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 537457002964 active site 537457002965 homotetramer interface [polypeptide binding]; other site 537457002966 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 537457002967 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 537457002968 DNA binding site [nucleotide binding] 537457002969 domain linker motif; other site 537457002970 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 537457002971 dimerization interface [polypeptide binding]; other site 537457002972 ligand binding site [chemical binding]; other site 537457002973 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 537457002974 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 537457002975 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 537457002976 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 537457002977 Mg2+ binding site [ion binding]; other site 537457002978 G-X-G motif; other site 537457002979 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 537457002980 anchoring element; other site 537457002981 dimer interface [polypeptide binding]; other site 537457002982 ATP binding site [chemical binding]; other site 537457002983 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 537457002984 active site 537457002985 putative metal-binding site [ion binding]; other site 537457002986 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 537457002987 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 537457002988 UbiA prenyltransferase family; Region: UbiA; pfam01040 537457002989 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 537457002990 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 537457002991 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 537457002992 adenylosuccinate lyase; Provisional; Region: PRK09285 537457002993 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 537457002994 tetramer interface [polypeptide binding]; other site 537457002995 active site 537457002996 putative lysogenization regulator; Reviewed; Region: PRK00218 537457002997 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 537457002998 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 537457002999 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 537457003000 Walker A/P-loop; other site 537457003001 ATP binding site [chemical binding]; other site 537457003002 Q-loop/lid; other site 537457003003 ABC transporter signature motif; other site 537457003004 Walker B; other site 537457003005 D-loop; other site 537457003006 H-loop/switch region; other site 537457003007 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 537457003008 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 537457003009 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457003010 Walker A/P-loop; other site 537457003011 ATP binding site [chemical binding]; other site 537457003012 Q-loop/lid; other site 537457003013 ABC transporter signature motif; other site 537457003014 Walker B; other site 537457003015 D-loop; other site 537457003016 H-loop/switch region; other site 537457003017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 537457003018 Family of unknown function (DUF490); Region: DUF490; pfam04357 537457003019 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 537457003020 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 537457003021 Surface antigen; Region: Bac_surface_Ag; pfam01103 537457003022 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 537457003023 NodB motif; other site 537457003024 putative active site [active] 537457003025 putative catalytic site [active] 537457003026 Zn binding site [ion binding]; other site 537457003027 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 537457003028 Bovine leukaemia virus receptor (BLVR); Region: BLVR; pfam06375 537457003029 Peptidase family M23; Region: Peptidase_M23; pfam01551 537457003030 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 537457003031 catalytic core [active] 537457003032 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 537457003033 Lysine efflux permease [General function prediction only]; Region: COG1279 537457003034 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 537457003035 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 537457003036 Sugar specificity; other site 537457003037 Pyrimidine base specificity; other site 537457003038 ATP-binding site [chemical binding]; other site 537457003039 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 537457003040 trimer interface [polypeptide binding]; other site 537457003041 active site 537457003042 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 537457003043 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 537457003044 HlyD family secretion protein; Region: HlyD_3; pfam13437 537457003045 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 537457003046 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 537457003047 Walker A/P-loop; other site 537457003048 ATP binding site [chemical binding]; other site 537457003049 Q-loop/lid; other site 537457003050 ABC transporter signature motif; other site 537457003051 Walker B; other site 537457003052 D-loop; other site 537457003053 H-loop/switch region; other site 537457003054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457003055 Walker A/P-loop; other site 537457003056 ATP binding site [chemical binding]; other site 537457003057 Q-loop/lid; other site 537457003058 ABC transporter signature motif; other site 537457003059 Walker B; other site 537457003060 D-loop; other site 537457003061 H-loop/switch region; other site 537457003062 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 537457003063 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 537457003064 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 537457003065 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 537457003066 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 537457003067 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 537457003068 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 537457003069 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 537457003070 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 537457003071 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 537457003072 ligand binding site [chemical binding]; other site 537457003073 homodimer interface [polypeptide binding]; other site 537457003074 NAD(P) binding site [chemical binding]; other site 537457003075 trimer interface B [polypeptide binding]; other site 537457003076 trimer interface A [polypeptide binding]; other site 537457003077 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 537457003078 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 537457003079 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 537457003080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 537457003081 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 537457003082 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 537457003083 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 537457003084 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 537457003085 active site 537457003086 motif I; other site 537457003087 motif II; other site 537457003088 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 537457003089 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 537457003090 catalytic triad [active] 537457003091 HemN family oxidoreductase; Provisional; Region: PRK05660 537457003092 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 537457003093 FeS/SAM binding site; other site 537457003094 HemN C-terminal domain; Region: HemN_C; pfam06969 537457003095 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 537457003096 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; cd00995 537457003097 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 537457003098 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 537457003099 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 537457003100 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 537457003101 dimer interface [polypeptide binding]; other site 537457003102 conserved gate region; other site 537457003103 ABC-ATPase subunit interface; other site 537457003104 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 537457003105 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 537457003106 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 537457003107 dimer interface [polypeptide binding]; other site 537457003108 conserved gate region; other site 537457003109 putative PBP binding loops; other site 537457003110 ABC-ATPase subunit interface; other site 537457003111 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 537457003112 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 537457003113 Walker A/P-loop; other site 537457003114 ATP binding site [chemical binding]; other site 537457003115 Q-loop/lid; other site 537457003116 ABC transporter signature motif; other site 537457003117 Walker B; other site 537457003118 D-loop; other site 537457003119 H-loop/switch region; other site 537457003120 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 537457003121 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 537457003122 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 537457003123 Walker A/P-loop; other site 537457003124 ATP binding site [chemical binding]; other site 537457003125 Q-loop/lid; other site 537457003126 ABC transporter signature motif; other site 537457003127 Walker B; other site 537457003128 D-loop; other site 537457003129 H-loop/switch region; other site 537457003130 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 537457003131 L-aspartate oxidase; Provisional; Region: PRK06175 537457003132 L-aspartate oxidase; Region: nadB; TIGR00551 537457003133 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 537457003134 substrate binding site [chemical binding]; other site 537457003135 THF binding site; other site 537457003136 zinc-binding site [ion binding]; other site 537457003137 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 537457003138 FAD binding site [chemical binding]; other site 537457003139 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 537457003140 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 537457003141 peptide binding site [polypeptide binding]; other site 537457003142 serine transporter; Region: stp; TIGR00814 537457003143 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 537457003144 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 537457003145 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 537457003146 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 537457003147 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 537457003148 Uncharacterized conserved protein [Function unknown]; Region: COG4121 537457003149 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 537457003150 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 537457003151 active site 537457003152 ribulose/triose binding site [chemical binding]; other site 537457003153 phosphate binding site [ion binding]; other site 537457003154 substrate (anthranilate) binding pocket [chemical binding]; other site 537457003155 product (indole) binding pocket [chemical binding]; other site 537457003156 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 537457003157 active site 537457003158 mobile mystery protein B; Region: mob_myst_B; TIGR02613 537457003159 Fic/DOC family; Region: Fic; pfam02661 537457003160 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 537457003161 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 537457003162 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 537457003163 probable active site [active] 537457003164 hypothetical protein; Provisional; Region: PRK05114 537457003165 Uncharacterized conserved protein [Function unknown]; Region: COG3025 537457003166 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 537457003167 putative active site [active] 537457003168 putative metal binding residues [ion binding]; other site 537457003169 signature motif; other site 537457003170 putative triphosphate binding site [ion binding]; other site 537457003171 YcjX-like family, DUF463; Region: DUF463; pfam04317 537457003172 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 537457003173 SmpB-tmRNA interface; other site 537457003174 seryl-tRNA synthetase; Provisional; Region: PRK05431 537457003175 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 537457003176 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 537457003177 dimer interface [polypeptide binding]; other site 537457003178 active site 537457003179 motif 1; other site 537457003180 motif 2; other site 537457003181 motif 3; other site 537457003182 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 537457003183 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 537457003184 putative metal binding site [ion binding]; other site 537457003185 dimer interface [polypeptide binding]; other site 537457003186 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 537457003187 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 537457003188 active site pocket [active] 537457003189 oxyanion hole [active] 537457003190 catalytic triad [active] 537457003191 active site nucleophile [active] 537457003192 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 537457003193 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 537457003194 HIGH motif; other site 537457003195 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 537457003196 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 537457003197 active site 537457003198 KMSKS motif; other site 537457003199 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 537457003200 tRNA binding surface [nucleotide binding]; other site 537457003201 Lipopolysaccharide-assembly; Region: LptE; cl01125 537457003202 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 537457003203 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 537457003204 Domain of unknown function (DUF329); Region: DUF329; pfam03884 537457003205 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 537457003206 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 537457003207 CoA-binding site [chemical binding]; other site 537457003208 ATP-binding [chemical binding]; other site 537457003209 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 537457003210 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 537457003211 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 537457003212 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 537457003213 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 537457003214 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 537457003215 Walker A motif; other site 537457003216 ATP binding site [chemical binding]; other site 537457003217 Walker B motif; other site 537457003218 putative major pilin subunit; Provisional; Region: PRK10574 537457003219 DNA repair protein RadA; Provisional; Region: PRK11823 537457003220 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 537457003221 Walker A motif/ATP binding site; other site 537457003222 ATP binding site [chemical binding]; other site 537457003223 Walker B motif; other site 537457003224 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 537457003225 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 537457003226 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 537457003227 folate binding site [chemical binding]; other site 537457003228 NADP+ binding site [chemical binding]; other site 537457003229 gamma-glutamyl kinase; Provisional; Region: PRK05429 537457003230 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 537457003231 nucleotide binding site [chemical binding]; other site 537457003232 homotetrameric interface [polypeptide binding]; other site 537457003233 putative phosphate binding site [ion binding]; other site 537457003234 putative allosteric binding site; other site 537457003235 PUA domain; Region: PUA; pfam01472 537457003236 hypothetical protein; Provisional; Region: PRK10621 537457003237 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 537457003238 endonuclease III; Provisional; Region: PRK10702 537457003239 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 537457003240 minor groove reading motif; other site 537457003241 helix-hairpin-helix signature motif; other site 537457003242 substrate binding pocket [chemical binding]; other site 537457003243 active site 537457003244 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 537457003245 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 537457003246 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 537457003247 dimer interface [polypeptide binding]; other site 537457003248 active site 537457003249 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 537457003250 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 537457003251 substrate binding site [chemical binding]; other site 537457003252 trimer interface [polypeptide binding]; other site 537457003253 oxyanion hole (OAH) forming residues; other site 537457003254 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 537457003255 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 537457003256 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 537457003257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 537457003258 Membrane transport protein; Region: Mem_trans; cl09117 537457003259 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 537457003260 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 537457003261 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 537457003262 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 537457003263 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 537457003264 molybdopterin cofactor binding site; other site 537457003265 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 537457003266 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 537457003267 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 537457003268 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 537457003269 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 537457003270 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 537457003271 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 537457003272 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 537457003273 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 537457003274 homodimer interface [polypeptide binding]; other site 537457003275 NADP binding site [chemical binding]; other site 537457003276 substrate binding site [chemical binding]; other site 537457003277 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 537457003278 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 537457003279 putative substrate translocation pore; other site 537457003280 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 537457003281 dihydrodipicolinate synthase; Region: dapA; TIGR00674 537457003282 dimer interface [polypeptide binding]; other site 537457003283 active site 537457003284 catalytic residue [active] 537457003285 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 537457003286 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 537457003287 putative acyl-acceptor binding pocket; other site 537457003288 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 537457003289 30S subunit binding site; other site 537457003290 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 537457003291 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 537457003292 dimerization interface 3.5A [polypeptide binding]; other site 537457003293 active site 537457003294 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 537457003295 homodecamer interface [polypeptide binding]; other site 537457003296 GTP cyclohydrolase I; Provisional; Region: PLN03044 537457003297 active site 537457003298 putative catalytic site residues [active] 537457003299 zinc binding site [ion binding]; other site 537457003300 GTP-CH-I/GFRP interaction surface; other site 537457003301 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 537457003302 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 537457003303 active site 537457003304 ATP binding site [chemical binding]; other site 537457003305 Uncharacterized conserved protein [Function unknown]; Region: COG4925 537457003306 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 537457003307 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 537457003308 trimer interface [polypeptide binding]; other site 537457003309 active site 537457003310 substrate binding site [chemical binding]; other site 537457003311 CoA binding site [chemical binding]; other site 537457003312 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 537457003313 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 537457003314 Transcriptional regulator [Transcription]; Region: LysR; COG0583 537457003315 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457003316 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 537457003317 putative effector binding pocket; other site 537457003318 putative dimerization interface [polypeptide binding]; other site 537457003319 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 537457003320 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 537457003321 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 537457003322 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 537457003323 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 537457003324 dimer interface [polypeptide binding]; other site 537457003325 conserved gate region; other site 537457003326 ABC-ATPase subunit interface; other site 537457003327 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 537457003328 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 537457003329 Walker A/P-loop; other site 537457003330 ATP binding site [chemical binding]; other site 537457003331 Q-loop/lid; other site 537457003332 ABC transporter signature motif; other site 537457003333 Walker B; other site 537457003334 D-loop; other site 537457003335 H-loop/switch region; other site 537457003336 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 537457003337 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 537457003338 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 537457003339 active site 537457003340 HIGH motif; other site 537457003341 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 537457003342 KMSKS motif; other site 537457003343 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 537457003344 tRNA binding surface [nucleotide binding]; other site 537457003345 anticodon binding site; other site 537457003346 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 537457003347 substrate binding site [chemical binding]; other site 537457003348 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 537457003349 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 537457003350 active site 537457003351 NTP binding site [chemical binding]; other site 537457003352 metal binding triad [ion binding]; metal-binding site 537457003353 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 537457003354 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 537457003355 Zn2+ binding site [ion binding]; other site 537457003356 Mg2+ binding site [ion binding]; other site 537457003357 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 537457003358 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457003359 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457003360 HTH-like domain; Region: HTH_21; pfam13276 537457003361 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 537457003362 Integrase core domain; Region: rve; pfam00665 537457003363 Integrase core domain; Region: rve_2; pfam13333 537457003364 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 537457003365 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 537457003366 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 537457003367 Tetratricopeptide repeat; Region: TPR_16; pfam13432 537457003368 Protein of unknown function (DUF560); Region: DUF560; pfam04575 537457003369 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 537457003370 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 537457003371 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 537457003372 catalytic loop [active] 537457003373 iron binding site [ion binding]; other site 537457003374 chaperone protein HscA; Provisional; Region: hscA; PRK05183 537457003375 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 537457003376 nucleotide binding site [chemical binding]; other site 537457003377 putative NEF/HSP70 interaction site [polypeptide binding]; other site 537457003378 SBD interface [polypeptide binding]; other site 537457003379 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 537457003380 Protein of unknown function, DUF606; Region: DUF606; pfam04657 537457003381 co-chaperone HscB; Provisional; Region: hscB; PRK01773 537457003382 DnaJ domain; Region: DnaJ; pfam00226 537457003383 HSP70 interaction site [polypeptide binding]; other site 537457003384 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 537457003385 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 537457003386 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 537457003387 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 537457003388 trimerization site [polypeptide binding]; other site 537457003389 active site 537457003390 cysteine desulfurase; Provisional; Region: PRK14012 537457003391 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 537457003392 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 537457003393 catalytic residue [active] 537457003394 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 537457003395 Rrf2 family protein; Region: rrf2_super; TIGR00738 537457003396 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 537457003397 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 537457003398 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 537457003399 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 537457003400 DNA binding site [nucleotide binding] 537457003401 active site 537457003402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 537457003403 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 537457003404 dimer interface [polypeptide binding]; other site 537457003405 phosphorylation site [posttranslational modification] 537457003406 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 537457003407 ATP binding site [chemical binding]; other site 537457003408 Mg2+ binding site [ion binding]; other site 537457003409 G-X-G motif; other site 537457003410 Response regulator receiver domain; Region: Response_reg; pfam00072 537457003411 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 537457003412 active site 537457003413 phosphorylation site [posttranslational modification] 537457003414 intermolecular recognition site; other site 537457003415 dimerization interface [polypeptide binding]; other site 537457003416 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 537457003417 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 537457003418 hypothetical protein; Provisional; Region: PRK04946 537457003419 Smr domain; Region: Smr; pfam01713 537457003420 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 537457003421 AAA domain; Region: AAA_26; pfam13500 537457003422 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 537457003423 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 537457003424 S-adenosylmethionine binding site [chemical binding]; other site 537457003425 Protein of unknown function (DUF452); Region: DUF452; cl01062 537457003426 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 537457003427 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 537457003428 substrate-cofactor binding pocket; other site 537457003429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457003430 catalytic residue [active] 537457003431 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 537457003432 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 537457003433 inhibitor-cofactor binding pocket; inhibition site 537457003434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457003435 catalytic residue [active] 537457003436 HemK family putative methylases; Region: hemK_fam; TIGR00536 537457003437 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 537457003438 S-adenosylmethionine binding site [chemical binding]; other site 537457003439 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 537457003440 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 537457003441 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 537457003442 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 537457003443 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 537457003444 Predicted acetyltransferase [General function prediction only]; Region: COG2388 537457003445 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 537457003446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 537457003447 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 537457003448 Winged helix-turn helix; Region: HTH_29; pfam13551 537457003449 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457003450 Integrase core domain; Region: rve; pfam00665 537457003451 Integrase core domain; Region: rve_3; pfam13683 537457003452 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 537457003453 RTX N-terminal domain; Region: RTX; pfam02382 537457003454 RTX C-terminal domain; Region: RTX_C; pfam08339 537457003455 RTX toxin acyltransferase family; Region: HlyC; pfam02794 537457003456 metal-binding heat shock protein; Provisional; Region: PRK00016 537457003457 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 537457003458 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 537457003459 Coenzyme A binding pocket [chemical binding]; other site 537457003460 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 537457003461 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 537457003462 purine monophosphate binding site [chemical binding]; other site 537457003463 dimer interface [polypeptide binding]; other site 537457003464 putative catalytic residues [active] 537457003465 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 537457003466 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 537457003467 Winged helix-turn helix; Region: HTH_29; pfam13551 537457003468 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457003469 Integrase core domain; Region: rve; pfam00665 537457003470 Integrase core domain; Region: rve_3; pfam13683 537457003471 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 537457003472 haemagglutination activity domain; Region: Haemagg_act; pfam05860 537457003473 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 537457003474 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 537457003475 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 537457003476 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 537457003477 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 537457003478 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 537457003479 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 537457003480 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 537457003481 OstA-like protein; Region: OstA; pfam03968 537457003482 Organic solvent tolerance protein; Region: OstA_C; pfam04453 537457003483 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 537457003484 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 537457003485 FeS/SAM binding site; other site 537457003486 HemN C-terminal domain; Region: HemN_C; pfam06969 537457003487 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 537457003488 Der GTPase activator; Provisional; Region: PRK05244 537457003489 putative transporter; Validated; Region: PRK03818 537457003490 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 537457003491 TrkA-C domain; Region: TrkA_C; pfam02080 537457003492 TrkA-C domain; Region: TrkA_C; pfam02080 537457003493 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 537457003494 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 537457003495 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 537457003496 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 537457003497 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 537457003498 metal binding triad; other site 537457003499 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 537457003500 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 537457003501 metal binding triad; other site 537457003502 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 537457003503 YciI-like protein; Reviewed; Region: PRK11370 537457003504 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 537457003505 intracellular septation protein A; Reviewed; Region: PRK00259 537457003506 Protein of unknown function, DUF412; Region: DUF412; pfam04217 537457003507 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 537457003508 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 537457003509 Ligand Binding Site [chemical binding]; other site 537457003510 Predicted permease [General function prediction only]; Region: COG2056 537457003511 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 537457003512 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 537457003513 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 537457003514 putative catalytic site [active] 537457003515 putative phosphate binding site [ion binding]; other site 537457003516 active site 537457003517 metal binding site A [ion binding]; metal-binding site 537457003518 DNA binding site [nucleotide binding] 537457003519 putative AP binding site [nucleotide binding]; other site 537457003520 putative metal binding site B [ion binding]; other site 537457003521 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457003522 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 537457003523 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 537457003524 putative dimerization interface [polypeptide binding]; other site 537457003525 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 537457003526 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 537457003527 putative active site [active] 537457003528 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 537457003529 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 537457003530 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 537457003531 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 537457003532 transketolase; Reviewed; Region: PRK12753 537457003533 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 537457003534 TPP-binding site [chemical binding]; other site 537457003535 dimer interface [polypeptide binding]; other site 537457003536 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 537457003537 PYR/PP interface [polypeptide binding]; other site 537457003538 dimer interface [polypeptide binding]; other site 537457003539 TPP binding site [chemical binding]; other site 537457003540 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 537457003541 heat shock protein 90; Provisional; Region: PRK05218 537457003542 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 537457003543 ATP binding site [chemical binding]; other site 537457003544 Mg2+ binding site [ion binding]; other site 537457003545 G-X-G motif; other site 537457003546 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 537457003547 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 537457003548 tetramer interface [polypeptide binding]; other site 537457003549 heme binding pocket [chemical binding]; other site 537457003550 NADPH binding site [chemical binding]; other site 537457003551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 537457003552 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457003553 Integrase core domain; Region: rve; pfam00665 537457003554 Integrase core domain; Region: rve_2; pfam13333 537457003555 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 537457003556 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 537457003557 putative active site [active] 537457003558 putative metal binding site [ion binding]; other site 537457003559 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 537457003560 ATP cone domain; Region: ATP-cone; pfam03477 537457003561 Class I ribonucleotide reductase; Region: RNR_I; cd01679 537457003562 active site 537457003563 dimer interface [polypeptide binding]; other site 537457003564 catalytic residues [active] 537457003565 effector binding site; other site 537457003566 R2 peptide binding site; other site 537457003567 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 537457003568 dimer interface [polypeptide binding]; other site 537457003569 putative radical transfer pathway; other site 537457003570 diiron center [ion binding]; other site 537457003571 tyrosyl radical; other site 537457003572 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 537457003573 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 537457003574 dimer interface [polypeptide binding]; other site 537457003575 active site 537457003576 galactokinase; Provisional; Region: PRK05101 537457003577 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 537457003578 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 537457003579 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 537457003580 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 537457003581 active site 537457003582 catalytic residues [active] 537457003583 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 537457003584 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 537457003585 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 537457003586 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 537457003587 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 537457003588 RTX C-terminal domain; Region: RTX_C; pfam08339 537457003589 MULE transposase domain; Region: MULE; pfam10551 537457003590 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 537457003591 RTX C-terminal domain; Region: RTX_C; pfam08339 537457003592 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 537457003593 Helix-turn-helix domain; Region: HTH_38; pfam13936 537457003594 Integrase core domain; Region: rve; pfam00665 537457003595 antiporter inner membrane protein; Provisional; Region: PRK11670 537457003596 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 537457003597 Walker A motif; other site 537457003598 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 537457003599 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 537457003600 peptide binding site [polypeptide binding]; other site 537457003601 hypothetical protein; Provisional; Region: PRK11111 537457003602 periplasmic folding chaperone; Provisional; Region: PRK10788 537457003603 SurA N-terminal domain; Region: SurA_N_3; cl07813 537457003604 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 537457003605 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 537457003606 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 537457003607 16S/18S rRNA binding site [nucleotide binding]; other site 537457003608 S13e-L30e interaction site [polypeptide binding]; other site 537457003609 25S rRNA binding site [nucleotide binding]; other site 537457003610 Protein of unknown function (DUF808); Region: DUF808; pfam05661 537457003611 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 537457003612 HemY protein N-terminus; Region: HemY_N; pfam07219 537457003613 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 537457003614 TPR motif; other site 537457003615 binding surface 537457003616 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 537457003617 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 537457003618 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 537457003619 active site 537457003620 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 537457003621 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 537457003622 domain interfaces; other site 537457003623 active site 537457003624 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 537457003625 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 537457003626 putative catalytic cysteine [active] 537457003627 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 537457003628 putative active site [active] 537457003629 metal binding site [ion binding]; metal-binding site 537457003630 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 537457003631 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 537457003632 ring oligomerisation interface [polypeptide binding]; other site 537457003633 ATP/Mg binding site [chemical binding]; other site 537457003634 stacking interactions; other site 537457003635 hinge regions; other site 537457003636 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 537457003637 oligomerisation interface [polypeptide binding]; other site 537457003638 mobile loop; other site 537457003639 roof hairpin; other site 537457003640 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 537457003641 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 537457003642 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 537457003643 intersubunit interface [polypeptide binding]; other site 537457003644 active site 537457003645 catalytic residue [active] 537457003646 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 537457003647 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 537457003648 Nucleoside recognition; Region: Gate; pfam07670 537457003649 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 537457003650 Predicted membrane protein [Function unknown]; Region: COG2364 537457003651 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 537457003652 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 537457003653 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 537457003654 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 537457003655 active site 537457003656 intersubunit interface [polypeptide binding]; other site 537457003657 catalytic residue [active] 537457003658 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 537457003659 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 537457003660 substrate binding site [chemical binding]; other site 537457003661 ATP binding site [chemical binding]; other site 537457003662 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 537457003663 Glucuronate isomerase; Region: UxaC; cl00829 537457003664 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 537457003665 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 537457003666 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 537457003667 putative active site [active] 537457003668 putative catalytic site [active] 537457003669 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 537457003670 DNA-binding site [nucleotide binding]; DNA binding site 537457003671 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 537457003672 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 537457003673 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 537457003674 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 537457003675 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 537457003676 active site 537457003677 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 537457003678 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 537457003679 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 537457003680 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 537457003681 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 537457003682 Uncharacterized conserved protein [Function unknown]; Region: COG1434 537457003683 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 537457003684 putative active site [active] 537457003685 primosome assembly protein PriA; Validated; Region: PRK05580 537457003686 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 537457003687 ATP binding site [chemical binding]; other site 537457003688 putative Mg++ binding site [ion binding]; other site 537457003689 helicase superfamily c-terminal domain; Region: HELICc; smart00490 537457003690 ATP-binding site [chemical binding]; other site 537457003691 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 537457003692 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 537457003693 Prephenate dehydratase; Region: PDT; pfam00800 537457003694 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 537457003695 putative L-Phe binding site [chemical binding]; other site 537457003696 oligopeptidase A; Provisional; Region: PRK10911 537457003697 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 537457003698 active site 537457003699 Zn binding site [ion binding]; other site 537457003700 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 537457003701 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 537457003702 FeS/SAM binding site; other site 537457003703 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 537457003704 Pyruvate formate lyase 1; Region: PFL1; cd01678 537457003705 coenzyme A binding site [chemical binding]; other site 537457003706 active site 537457003707 catalytic residues [active] 537457003708 glycine loop; other site 537457003709 formate transporter FocA; Region: formate_focA; TIGR04060 537457003710 Predicted membrane protein [Function unknown]; Region: COG1238 537457003711 heat shock protein HtpX; Provisional; Region: PRK05457 537457003712 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 537457003713 active site 537457003714 DNA polymerase IV; Validated; Region: PRK02406 537457003715 DNA binding site [nucleotide binding] 537457003716 Predicted membrane protein [Function unknown]; Region: COG2431 537457003717 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 537457003718 chorismate binding enzyme; Region: Chorismate_bind; cl10555 537457003719 aminotransferase AlaT; Validated; Region: PRK09265 537457003720 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 537457003721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457003722 homodimer interface [polypeptide binding]; other site 537457003723 catalytic residue [active] 537457003724 Predicted permeases [General function prediction only]; Region: RarD; COG2962 537457003725 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 537457003726 Predicted permeases [General function prediction only]; Region: RarD; COG2962 537457003727 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 537457003728 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 537457003729 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 537457003730 ligand-binding site [chemical binding]; other site 537457003731 heme utilization protein HutZ; Region: heme_HutZ; TIGR04110 537457003732 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 537457003733 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 537457003734 TPR repeat; Region: TPR_11; pfam13414 537457003735 binding surface 537457003736 TPR motif; other site 537457003737 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 537457003738 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 537457003739 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 537457003740 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 537457003741 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 537457003742 TrkA-N domain; Region: TrkA_N; pfam02254 537457003743 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 537457003744 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 537457003745 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 537457003746 TrkA-N domain; Region: TrkA_N; pfam02254 537457003747 adenylate cyclase; Provisional; Region: cyaA; PRK09450 537457003748 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 537457003749 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 537457003750 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 537457003751 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 537457003752 dimer interface [polypeptide binding]; other site 537457003753 active site 537457003754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 537457003755 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457003756 HTH-like domain; Region: HTH_21; pfam13276 537457003757 Integrase core domain; Region: rve; pfam00665 537457003758 Integrase core domain; Region: rve_2; pfam13333 537457003759 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 537457003760 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 537457003761 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 537457003762 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 537457003763 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 537457003764 active site 537457003765 phosphorylation site [posttranslational modification] 537457003766 intermolecular recognition site; other site 537457003767 dimerization interface [polypeptide binding]; other site 537457003768 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 537457003769 DNA binding site [nucleotide binding] 537457003770 sensor protein QseC; Provisional; Region: PRK10337 537457003771 HAMP domain; Region: HAMP; pfam00672 537457003772 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 537457003773 dimer interface [polypeptide binding]; other site 537457003774 phosphorylation site [posttranslational modification] 537457003775 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 537457003776 ATP binding site [chemical binding]; other site 537457003777 G-X-G motif; other site 537457003778 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 537457003779 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 537457003780 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 537457003781 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 537457003782 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 537457003783 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 537457003784 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 537457003785 Protein export membrane protein; Region: SecD_SecF; pfam02355 537457003786 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 537457003787 Ferritin-like domain; Region: Ferritin; pfam00210 537457003788 ferroxidase diiron center [ion binding]; other site 537457003789 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 537457003790 Ferritin-like domain; Region: Ferritin; pfam00210 537457003791 ferroxidase diiron center [ion binding]; other site 537457003792 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 537457003793 Sulfate transporter family; Region: Sulfate_transp; pfam00916 537457003794 Maf-like protein; Region: Maf; pfam02545 537457003795 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 537457003796 active site 537457003797 dimer interface [polypeptide binding]; other site 537457003798 Uncharacterized conserved protein [Function unknown]; Region: COG2128 537457003799 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 537457003800 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 537457003801 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 537457003802 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 537457003803 Ligand Binding Site [chemical binding]; other site 537457003804 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 537457003805 active site residue [active] 537457003806 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 537457003807 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 537457003808 GDP-binding site [chemical binding]; other site 537457003809 ACT binding site; other site 537457003810 IMP binding site; other site 537457003811 FtsH protease regulator HflC; Provisional; Region: PRK11029 537457003812 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 537457003813 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 537457003814 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 537457003815 HflK protein; Region: hflK; TIGR01933 537457003816 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 537457003817 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 537457003818 catalytic residues [active] 537457003819 xanthine permease; Region: pbuX; TIGR03173 537457003820 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 537457003821 S-adenosylmethionine synthetase; Validated; Region: PRK05250 537457003822 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 537457003823 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 537457003824 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 537457003825 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 537457003826 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 537457003827 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 537457003828 acetylornithine deacetylase; Provisional; Region: PRK05111 537457003829 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 537457003830 metal binding site [ion binding]; metal-binding site 537457003831 putative dimer interface [polypeptide binding]; other site 537457003832 OmpW family; Region: OmpW; cl17427 537457003833 Clp amino terminal domain; Region: Clp_N; pfam02861 537457003834 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 537457003835 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 537457003836 Walker A motif; other site 537457003837 ATP binding site [chemical binding]; other site 537457003838 Walker B motif; other site 537457003839 arginine finger; other site 537457003840 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 537457003841 Walker A motif; other site 537457003842 ATP binding site [chemical binding]; other site 537457003843 Walker B motif; other site 537457003844 arginine finger; other site 537457003845 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 537457003846 arsenical-resistance protein; Region: acr3; TIGR00832 537457003847 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 537457003848 ArsC family; Region: ArsC; pfam03960 537457003849 catalytic residues [active] 537457003850 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 537457003851 putative DNA binding site [nucleotide binding]; other site 537457003852 dimerization interface [polypeptide binding]; other site 537457003853 putative Zn2+ binding site [ion binding]; other site 537457003854 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 537457003855 Aspartase; Region: Aspartase; cd01357 537457003856 active sites [active] 537457003857 tetramer interface [polypeptide binding]; other site 537457003858 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 537457003859 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 537457003860 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 537457003861 dimerization interface [polypeptide binding]; other site 537457003862 putative ATP binding site [chemical binding]; other site 537457003863 Glycosyl hydrolase family 20 (GH20) catalytic domain of dispersin B (DspB), lacto-N-biosidase (LnbB) and related proteins. Dispersin B is a soluble beta-N-acetylglucosamidase found in bacteria that hydrolyzes the beta-1,6-linkages of PGA (poly-beta-(1,6)...; Region: GH20_DspB_LnbB-like; cd06564 537457003864 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 537457003865 active site 537457003866 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 537457003867 Ligand Binding Site [chemical binding]; other site 537457003868 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 537457003869 active site 537457003870 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 537457003871 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 537457003872 FeS/SAM binding site; other site 537457003873 multifunctional aminopeptidase A; Provisional; Region: PRK00913 537457003874 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 537457003875 interface (dimer of trimers) [polypeptide binding]; other site 537457003876 Substrate-binding/catalytic site; other site 537457003877 Zn-binding sites [ion binding]; other site 537457003878 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 537457003879 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 537457003880 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 537457003881 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 537457003882 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 537457003883 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 537457003884 putative active site [active] 537457003885 putative PHP Thumb interface [polypeptide binding]; other site 537457003886 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 537457003887 generic binding surface II; other site 537457003888 generic binding surface I; other site 537457003889 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 537457003890 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 537457003891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 537457003892 ATP-grasp domain; Region: ATP-grasp; pfam02222 537457003893 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 537457003894 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 537457003895 putative acyl-acceptor binding pocket; other site 537457003896 LexA repressor; Validated; Region: PRK00215 537457003897 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 537457003898 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 537457003899 Catalytic site [active] 537457003900 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 537457003901 putative DNA-binding cleft [nucleotide binding]; other site 537457003902 putative DNA clevage site; other site 537457003903 molecular lever; other site 537457003904 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 537457003905 beta-hexosaminidase; Provisional; Region: PRK05337 537457003906 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 537457003907 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 537457003908 Helix-turn-helix domain; Region: HTH_38; pfam13936 537457003909 Integrase core domain; Region: rve; pfam00665 537457003910 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 537457003911 enolase; Provisional; Region: eno; PRK00077 537457003912 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 537457003913 dimer interface [polypeptide binding]; other site 537457003914 metal binding site [ion binding]; metal-binding site 537457003915 substrate binding pocket [chemical binding]; other site 537457003916 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 537457003917 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 537457003918 nudix motif; other site 537457003919 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 537457003920 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 537457003921 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 537457003922 ATP binding site [chemical binding]; other site 537457003923 putative Mg++ binding site [ion binding]; other site 537457003924 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 537457003925 nucleotide binding region [chemical binding]; other site 537457003926 ATP-binding site [chemical binding]; other site 537457003927 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 537457003928 HRDC domain; Region: HRDC; pfam00570 537457003929 frataxin-like protein; Provisional; Region: cyaY; PRK00446 537457003930 putative iron binding site [ion binding]; other site 537457003931 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 537457003932 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 537457003933 UGMP family protein; Validated; Region: PRK09604 537457003934 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 537457003935 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 537457003936 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 537457003937 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 537457003938 RNA binding surface [nucleotide binding]; other site 537457003939 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 537457003940 active site 537457003941 YwiC-like protein; Region: YwiC; pfam14256 537457003942 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 537457003943 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 537457003944 active site 537457003945 ADP/pyrophosphate binding site [chemical binding]; other site 537457003946 dimerization interface [polypeptide binding]; other site 537457003947 allosteric effector site; other site 537457003948 fructose-1,6-bisphosphate binding site; other site 537457003949 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 537457003950 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 537457003951 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 537457003952 catalytic residue [active] 537457003953 Staphylococcal nuclease homologues; Region: SNc; smart00318 537457003954 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 537457003955 Catalytic site; other site 537457003956 Excalibur calcium-binding domain; Region: Excalibur; cl05460 537457003957 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 537457003958 amino acid carrier protein; Region: agcS; TIGR00835 537457003959 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 537457003960 Domain of unknown function DUF20; Region: UPF0118; pfam01594 537457003961 Cytochrome b562; Region: Cytochrom_B562; pfam07361 537457003962 putative protease; Provisional; Region: PRK15452 537457003963 Peptidase family U32; Region: Peptidase_U32; pfam01136 537457003964 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 537457003965 O-Antigen ligase; Region: Wzy_C; pfam04932 537457003966 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 537457003967 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 537457003968 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 537457003969 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 537457003970 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 537457003971 active site 537457003972 (T/H)XGH motif; other site 537457003973 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 537457003974 catalytic site [active] 537457003975 putative active site [active] 537457003976 putative substrate binding site [chemical binding]; other site 537457003977 dimer interface [polypeptide binding]; other site 537457003978 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 537457003979 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 537457003980 active site 537457003981 metal binding site [ion binding]; metal-binding site 537457003982 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 537457003983 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 537457003984 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 537457003985 active site 537457003986 dimer interface [polypeptide binding]; other site 537457003987 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 537457003988 dimer interface [polypeptide binding]; other site 537457003989 active site 537457003990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 537457003991 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 537457003992 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 537457003993 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 537457003994 shikimate binding site; other site 537457003995 NAD(P) binding site [chemical binding]; other site 537457003996 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 537457003997 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 537457003998 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 537457003999 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 537457004000 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 537457004001 recombination regulator RecX; Reviewed; Region: recX; PRK00117 537457004002 recombinase A; Provisional; Region: recA; PRK09354 537457004003 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 537457004004 hexamer interface [polypeptide binding]; other site 537457004005 Walker A motif; other site 537457004006 ATP binding site [chemical binding]; other site 537457004007 Walker B motif; other site 537457004008 hypothetical protein; Provisional; Region: PRK07101 537457004009 substrate-cofactor binding pocket; other site 537457004010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457004011 catalytic residue [active] 537457004012 para-aminobenzoate synthase component I; Validated; Region: PRK07093 537457004013 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 537457004014 RmuC family; Region: RmuC; pfam02646 537457004015 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 537457004016 Glutamine amidotransferase class-I; Region: GATase; pfam00117 537457004017 glutamine binding [chemical binding]; other site 537457004018 catalytic triad [active] 537457004019 Domain of unknown function DUF302; Region: DUF302; cl01364 537457004020 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 537457004021 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 537457004022 dimer interface [polypeptide binding]; other site 537457004023 anticodon binding site; other site 537457004024 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 537457004025 homodimer interface [polypeptide binding]; other site 537457004026 motif 1; other site 537457004027 active site 537457004028 motif 2; other site 537457004029 GAD domain; Region: GAD; pfam02938 537457004030 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 537457004031 active site 537457004032 motif 3; other site 537457004033 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 537457004034 nudix motif; other site 537457004035 hypothetical protein; Validated; Region: PRK00110 537457004036 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 537457004037 active site 537457004038 putative DNA-binding cleft [nucleotide binding]; other site 537457004039 dimer interface [polypeptide binding]; other site 537457004040 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 537457004041 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 537457004042 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 537457004043 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 537457004044 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 537457004045 THF binding site; other site 537457004046 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 537457004047 substrate binding site [chemical binding]; other site 537457004048 THF binding site; other site 537457004049 zinc-binding site [ion binding]; other site 537457004050 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 537457004051 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 537457004052 transmembrane helices; other site 537457004053 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 537457004054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457004055 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 537457004056 putative dimerization interface [polypeptide binding]; other site 537457004057 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 537457004058 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 537457004059 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 537457004060 RNA binding surface [nucleotide binding]; other site 537457004061 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 537457004062 probable active site [active] 537457004063 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 537457004064 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 537457004065 anthranilate synthase component I; Provisional; Region: PRK13564 537457004066 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 537457004067 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 537457004068 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 537457004069 Glutamine amidotransferase class-I; Region: GATase; pfam00117 537457004070 glutamine binding [chemical binding]; other site 537457004071 catalytic triad [active] 537457004072 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 537457004073 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 537457004074 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 537457004075 Methyltransferase domain; Region: Methyltransf_31; pfam13847 537457004076 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 537457004077 S-adenosylmethionine binding site [chemical binding]; other site 537457004078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 537457004079 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 537457004080 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 537457004081 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 537457004082 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 537457004083 primosomal replication protein N; Provisional; Region: PRK02801 537457004084 generic binding surface II; other site 537457004085 generic binding surface I; other site 537457004086 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 537457004087 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 537457004088 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 537457004089 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 537457004090 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 537457004091 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 537457004092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 537457004093 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 537457004094 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 537457004095 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 537457004096 dimer interface [polypeptide binding]; other site 537457004097 motif 1; other site 537457004098 active site 537457004099 motif 2; other site 537457004100 motif 3; other site 537457004101 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 537457004102 anticodon binding site; other site 537457004103 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 537457004104 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 537457004105 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 537457004106 cytoskeletal protein RodZ; Provisional; Region: PRK10856 537457004107 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 537457004108 non-specific DNA binding site [nucleotide binding]; other site 537457004109 salt bridge; other site 537457004110 sequence-specific DNA binding site [nucleotide binding]; other site 537457004111 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 537457004112 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 537457004113 Sulfate transporter family; Region: Sulfate_transp; pfam00916 537457004114 argininosuccinate lyase; Provisional; Region: PRK04833 537457004115 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 537457004116 active sites [active] 537457004117 tetramer interface [polypeptide binding]; other site 537457004118 putative oxidoreductase; Provisional; Region: PRK11579 537457004119 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 537457004120 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 537457004121 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 537457004122 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 537457004123 TrkA-N domain; Region: TrkA_N; pfam02254 537457004124 Transcriptional regulator [Transcription]; Region: LysR; COG0583 537457004125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457004126 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 537457004127 putative effector binding pocket; other site 537457004128 dimerization interface [polypeptide binding]; other site 537457004129 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 537457004130 MULE transposase domain; Region: MULE; pfam10551 537457004131 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 537457004132 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 537457004133 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 537457004134 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 537457004135 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 537457004136 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 537457004137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457004138 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 537457004139 putative substrate binding pocket [chemical binding]; other site 537457004140 putative dimerization interface [polypeptide binding]; other site 537457004141 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 537457004142 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 537457004143 active site 537457004144 FMN binding site [chemical binding]; other site 537457004145 substrate binding site [chemical binding]; other site 537457004146 homotetramer interface [polypeptide binding]; other site 537457004147 catalytic residue [active] 537457004148 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 537457004149 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 537457004150 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 537457004151 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 537457004152 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 537457004153 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 537457004154 dimer interface [polypeptide binding]; other site 537457004155 FMN binding site [chemical binding]; other site 537457004156 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 537457004157 Protein of unknown function, DUF479; Region: DUF479; cl01203 537457004158 S-formylglutathione hydrolase; Region: PLN02442 537457004159 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 537457004160 putative S-transferase; Provisional; Region: PRK11752 537457004161 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 537457004162 C-terminal domain interface [polypeptide binding]; other site 537457004163 GSH binding site (G-site) [chemical binding]; other site 537457004164 dimer interface [polypeptide binding]; other site 537457004165 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 537457004166 dimer interface [polypeptide binding]; other site 537457004167 N-terminal domain interface [polypeptide binding]; other site 537457004168 active site 537457004169 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 537457004170 oligomeric interface; other site 537457004171 putative active site [active] 537457004172 homodimer interface [polypeptide binding]; other site 537457004173 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 537457004174 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 537457004175 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 537457004176 substrate binding site [chemical binding]; other site 537457004177 catalytic Zn binding site [ion binding]; other site 537457004178 NAD binding site [chemical binding]; other site 537457004179 structural Zn binding site [ion binding]; other site 537457004180 dimer interface [polypeptide binding]; other site 537457004181 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 537457004182 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 537457004183 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 537457004184 Uncharacterized conserved protein [Function unknown]; Region: COG1801 537457004185 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 537457004186 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 537457004187 gating phenylalanine in ion channel; other site 537457004188 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 537457004189 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 537457004190 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 537457004191 motif II; other site 537457004192 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 537457004193 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 537457004194 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 537457004195 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457004196 Walker A/P-loop; other site 537457004197 ATP binding site [chemical binding]; other site 537457004198 Q-loop/lid; other site 537457004199 ABC transporter signature motif; other site 537457004200 Walker B; other site 537457004201 D-loop; other site 537457004202 H-loop/switch region; other site 537457004203 S-ribosylhomocysteinase; Provisional; Region: PRK02260 537457004204 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 537457004205 mce related protein; Region: MCE; pfam02470 537457004206 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 537457004207 mce related protein; Region: MCE; pfam02470 537457004208 mce related protein; Region: MCE; pfam02470 537457004209 mce related protein; Region: MCE; pfam02470 537457004210 ferric uptake regulator; Provisional; Region: fur; PRK09462 537457004211 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 537457004212 metal binding site 2 [ion binding]; metal-binding site 537457004213 putative DNA binding helix; other site 537457004214 metal binding site 1 [ion binding]; metal-binding site 537457004215 dimer interface [polypeptide binding]; other site 537457004216 structural Zn2+ binding site [ion binding]; other site 537457004217 flavodoxin FldA; Validated; Region: PRK09267 537457004218 LexA regulated protein; Provisional; Region: PRK11675 537457004219 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 537457004220 putative deacylase active site [active] 537457004221 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 537457004222 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 537457004223 DsrE/DsrF-like family; Region: DrsE; cl00672 537457004224 Predicted flavoproteins [General function prediction only]; Region: COG2081 537457004225 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 537457004226 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 537457004227 rRNA binding site [nucleotide binding]; other site 537457004228 predicted 30S ribosome binding site; other site 537457004229 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 537457004230 phosphoserine phosphatase SerB; Region: serB; TIGR00338 537457004231 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 537457004232 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 537457004233 motif II; other site 537457004234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 537457004235 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 537457004236 maltodextrin phosphorylase; Provisional; Region: PRK14985 537457004237 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 537457004238 active site pocket [active] 537457004239 transcriptional regulator MalT; Provisional; Region: PRK04841 537457004240 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 537457004241 binding surface 537457004242 TPR motif; other site 537457004243 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 537457004244 DNA binding residues [nucleotide binding] 537457004245 dimerization interface [polypeptide binding]; other site 537457004246 maltose regulon periplasmic protein; Provisional; Region: PRK10564 537457004247 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 537457004248 trimer interface; other site 537457004249 sugar binding site [chemical binding]; other site 537457004250 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 537457004251 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 537457004252 Walker A/P-loop; other site 537457004253 ATP binding site [chemical binding]; other site 537457004254 Q-loop/lid; other site 537457004255 ABC transporter signature motif; other site 537457004256 Walker B; other site 537457004257 D-loop; other site 537457004258 H-loop/switch region; other site 537457004259 TOBE domain; Region: TOBE_2; pfam08402 537457004260 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 537457004261 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 537457004262 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 537457004263 dimer interface [polypeptide binding]; other site 537457004264 conserved gate region; other site 537457004265 putative PBP binding loops; other site 537457004266 ABC-ATPase subunit interface; other site 537457004267 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 537457004268 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 537457004269 dimer interface [polypeptide binding]; other site 537457004270 conserved gate region; other site 537457004271 putative PBP binding loops; other site 537457004272 ABC-ATPase subunit interface; other site 537457004273 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 537457004274 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 537457004275 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 537457004276 Carbon starvation protein CstA; Region: CstA; pfam02554 537457004277 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 537457004278 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 537457004279 active site 537457004280 glutathione reductase; Validated; Region: PRK06116 537457004281 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 537457004282 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 537457004283 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 537457004284 hypothetical protein; Provisional; Region: PRK05208 537457004285 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 537457004286 dimer interface [polypeptide binding]; other site 537457004287 FMN binding site [chemical binding]; other site 537457004288 Predicted membrane protein [Function unknown]; Region: COG4541 537457004289 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 537457004290 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 537457004291 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 537457004292 Walker A/P-loop; other site 537457004293 ATP binding site [chemical binding]; other site 537457004294 Q-loop/lid; other site 537457004295 ABC transporter signature motif; other site 537457004296 Walker B; other site 537457004297 D-loop; other site 537457004298 H-loop/switch region; other site 537457004299 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 537457004300 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 537457004301 active site 537457004302 intersubunit interface [polypeptide binding]; other site 537457004303 zinc binding site [ion binding]; other site 537457004304 Na+ binding site [ion binding]; other site 537457004305 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 537457004306 Phosphoglycerate kinase; Region: PGK; pfam00162 537457004307 substrate binding site [chemical binding]; other site 537457004308 hinge regions; other site 537457004309 ADP binding site [chemical binding]; other site 537457004310 catalytic site [active] 537457004311 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 537457004312 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 537457004313 transmembrane helices; other site 537457004314 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 537457004315 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 537457004316 transmembrane helices; other site 537457004317 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 537457004318 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 537457004319 transmembrane helices; other site 537457004320 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 537457004321 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 537457004322 ATP binding site [chemical binding]; other site 537457004323 Mg2+ binding site [ion binding]; other site 537457004324 G-X-G motif; other site 537457004325 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 537457004326 anchoring element; other site 537457004327 dimer interface [polypeptide binding]; other site 537457004328 ATP binding site [chemical binding]; other site 537457004329 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 537457004330 active site 537457004331 putative metal-binding site [ion binding]; other site 537457004332 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 537457004333 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 537457004334 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 537457004335 putative active site [active] 537457004336 heme pocket [chemical binding]; other site 537457004337 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 537457004338 dimer interface [polypeptide binding]; other site 537457004339 phosphorylation site [posttranslational modification] 537457004340 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 537457004341 ATP binding site [chemical binding]; other site 537457004342 Mg2+ binding site [ion binding]; other site 537457004343 G-X-G motif; other site 537457004344 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 537457004345 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 537457004346 active site 537457004347 phosphorylation site [posttranslational modification] 537457004348 intermolecular recognition site; other site 537457004349 dimerization interface [polypeptide binding]; other site 537457004350 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 537457004351 DNA binding site [nucleotide binding] 537457004352 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 537457004353 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 537457004354 Walker A/P-loop; other site 537457004355 ATP binding site [chemical binding]; other site 537457004356 Q-loop/lid; other site 537457004357 ABC transporter signature motif; other site 537457004358 Walker B; other site 537457004359 D-loop; other site 537457004360 H-loop/switch region; other site 537457004361 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 537457004362 dimer interface [polypeptide binding]; other site 537457004363 ABC-ATPase subunit interface; other site 537457004364 putative PBP binding loops; other site 537457004365 fructuronate transporter; Provisional; Region: PRK10034; cl15264 537457004366 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 537457004367 conserved gate region; other site 537457004368 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 537457004369 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 537457004370 dimer interface [polypeptide binding]; other site 537457004371 conserved gate region; other site 537457004372 putative PBP binding loops; other site 537457004373 ABC-ATPase subunit interface; other site 537457004374 PBP superfamily domain; Region: PBP_like_2; cl17296 537457004375 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 537457004376 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 537457004377 DNA binding residues [nucleotide binding] 537457004378 dimer interface [polypeptide binding]; other site 537457004379 copper binding site [ion binding]; other site 537457004380 Predicted metal-binding protein [General function prediction only]; Region: COG3019 537457004381 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 537457004382 metal-binding site [ion binding] 537457004383 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 537457004384 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 537457004385 metal-binding site [ion binding] 537457004386 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 537457004387 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 537457004388 motif II; other site 537457004389 short chain dehydrogenase; Provisional; Region: PRK05993 537457004390 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 537457004391 NADP binding site [chemical binding]; other site 537457004392 active site 537457004393 steroid binding site; other site 537457004394 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 537457004395 putative FMN binding site [chemical binding]; other site 537457004396 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 537457004397 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 537457004398 tandem repeat interface [polypeptide binding]; other site 537457004399 oligomer interface [polypeptide binding]; other site 537457004400 active site residues [active] 537457004401 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 537457004402 tandem repeat interface [polypeptide binding]; other site 537457004403 oligomer interface [polypeptide binding]; other site 537457004404 active site residues [active] 537457004405 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 537457004406 B1 nucleotide binding pocket [chemical binding]; other site 537457004407 B2 nucleotide binding pocket [chemical binding]; other site 537457004408 CAS motifs; other site 537457004409 active site 537457004410 hypothetical protein; Provisional; Region: PRK04860 537457004411 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 537457004412 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 537457004413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 537457004414 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 537457004415 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 537457004416 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 537457004417 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 537457004418 RNA binding site [nucleotide binding]; other site 537457004419 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 537457004420 binding surface 537457004421 TPR motif; other site 537457004422 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 537457004423 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; cl17355 537457004424 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 537457004425 FeS/SAM binding site; other site 537457004426 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 537457004427 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 537457004428 HIGH motif; other site 537457004429 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 537457004430 active site 537457004431 KMSKS motif; other site 537457004432 Uncharacterized conserved protein [Function unknown]; Region: COG2835 537457004433 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 537457004434 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 537457004435 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 537457004436 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 537457004437 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 537457004438 Walker A motif; other site 537457004439 ATP binding site [chemical binding]; other site 537457004440 Walker B motif; other site 537457004441 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 537457004442 Clp protease; Region: CLP_protease; pfam00574 537457004443 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 537457004444 oligomer interface [polypeptide binding]; other site 537457004445 active site residues [active] 537457004446 Fe-S metabolism associated domain; Region: SufE; cl00951 537457004447 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 537457004448 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 537457004449 active site 537457004450 catalytic site [active] 537457004451 substrate binding site [chemical binding]; other site 537457004452 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 537457004453 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 537457004454 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 537457004455 ABC transporter; Region: ABC_tran_2; pfam12848 537457004456 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 537457004457 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 537457004458 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 537457004459 active site residue [active] 537457004460 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 537457004461 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 537457004462 hinge; other site 537457004463 active site 537457004464 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 537457004465 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 537457004466 anti sigma factor interaction site; other site 537457004467 regulatory phosphorylation site [posttranslational modification]; other site 537457004468 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 537457004469 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 537457004470 mce related protein; Region: MCE; pfam02470 537457004471 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 537457004472 conserved hypothetical integral membrane protein; Region: TIGR00056 537457004473 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 537457004474 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 537457004475 Walker A/P-loop; other site 537457004476 ATP binding site [chemical binding]; other site 537457004477 Q-loop/lid; other site 537457004478 ABC transporter signature motif; other site 537457004479 Walker B; other site 537457004480 D-loop; other site 537457004481 H-loop/switch region; other site 537457004482 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 537457004483 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 537457004484 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 537457004485 protein binding site [polypeptide binding]; other site 537457004486 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 537457004487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 537457004488 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 537457004489 NAD(P) binding site [chemical binding]; other site 537457004490 active site 537457004491 arginine repressor; Provisional; Region: PRK05066 537457004492 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 537457004493 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 537457004494 malate dehydrogenase; Provisional; Region: PRK05086 537457004495 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 537457004496 NAD binding site [chemical binding]; other site 537457004497 dimerization interface [polypeptide binding]; other site 537457004498 Substrate binding site [chemical binding]; other site 537457004499 adenylate kinase; Reviewed; Region: adk; PRK00279 537457004500 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 537457004501 AMP-binding site [chemical binding]; other site 537457004502 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 537457004503 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 537457004504 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 537457004505 N-terminal plug; other site 537457004506 ligand-binding site [chemical binding]; other site 537457004507 muropeptide transporter; Reviewed; Region: ampG; PRK11902 537457004508 AmpG-like permease; Region: 2A0125; TIGR00901 537457004509 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 537457004510 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 537457004511 NAD binding site [chemical binding]; other site 537457004512 homodimer interface [polypeptide binding]; other site 537457004513 active site 537457004514 substrate binding site [chemical binding]; other site 537457004515 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 537457004516 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 537457004517 nucleotide binding pocket [chemical binding]; other site 537457004518 K-X-D-G motif; other site 537457004519 catalytic site [active] 537457004520 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 537457004521 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 537457004522 Dimer interface [polypeptide binding]; other site 537457004523 BRCT sequence motif; other site 537457004524 cell division protein ZipA; Provisional; Region: PRK01741 537457004525 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 537457004526 FtsZ protein binding site [polypeptide binding]; other site 537457004527 putative sulfate transport protein CysZ; Validated; Region: PRK04949 537457004528 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 537457004529 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 537457004530 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 537457004531 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 537457004532 aspartate racemase; Region: asp_race; TIGR00035 537457004533 benzoate transport; Region: 2A0115; TIGR00895 537457004534 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 537457004535 putative substrate translocation pore; other site 537457004536 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 537457004537 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 537457004538 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 537457004539 putative active site [active] 537457004540 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 537457004541 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 537457004542 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 537457004543 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 537457004544 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 537457004545 active site 537457004546 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 537457004547 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 537457004548 dimer interface [polypeptide binding]; other site 537457004549 ADP-ribose binding site [chemical binding]; other site 537457004550 active site 537457004551 nudix motif; other site 537457004552 metal binding site [ion binding]; metal-binding site 537457004553 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 537457004554 RNA binding surface [nucleotide binding]; other site 537457004555 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 537457004556 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 537457004557 dimerization interface [polypeptide binding]; other site 537457004558 domain crossover interface; other site 537457004559 redox-dependent activation switch; other site 537457004560 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 537457004561 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 537457004562 ornithine carbamoyltransferase; Provisional; Region: PRK01713 537457004563 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 537457004564 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 537457004565 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 537457004566 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 537457004567 putative substrate binding site [chemical binding]; other site 537457004568 nucleotide binding site [chemical binding]; other site 537457004569 nucleotide binding site [chemical binding]; other site 537457004570 homodimer interface [polypeptide binding]; other site 537457004571 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 537457004572 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 537457004573 active site turn [active] 537457004574 phosphorylation site [posttranslational modification] 537457004575 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 537457004576 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 537457004577 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 537457004578 Walker A/P-loop; other site 537457004579 ATP binding site [chemical binding]; other site 537457004580 Q-loop/lid; other site 537457004581 ABC transporter signature motif; other site 537457004582 Walker B; other site 537457004583 D-loop; other site 537457004584 H-loop/switch region; other site 537457004585 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 537457004586 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 537457004587 dimer interface [polypeptide binding]; other site 537457004588 conserved gate region; other site 537457004589 putative PBP binding loops; other site 537457004590 ABC-ATPase subunit interface; other site 537457004591 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 537457004592 dimer interface [polypeptide binding]; other site 537457004593 conserved gate region; other site 537457004594 putative PBP binding loops; other site 537457004595 ABC-ATPase subunit interface; other site 537457004596 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 537457004597 dimerization domain swap beta strand [polypeptide binding]; other site 537457004598 regulatory protein interface [polypeptide binding]; other site 537457004599 active site 537457004600 regulatory phosphorylation site [posttranslational modification]; other site 537457004601 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 537457004602 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 537457004603 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 537457004604 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 537457004605 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 537457004606 HPr interaction site; other site 537457004607 glycerol kinase (GK) interaction site [polypeptide binding]; other site 537457004608 active site 537457004609 phosphorylation site [posttranslational modification] 537457004610 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 537457004611 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 537457004612 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 537457004613 FeS/SAM binding site; other site 537457004614 TRAM domain; Region: TRAM; pfam01938 537457004615 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 537457004616 Part of AAA domain; Region: AAA_19; pfam13245 537457004617 Family description; Region: UvrD_C_2; pfam13538 537457004618 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 537457004619 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 537457004620 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 537457004621 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 537457004622 dimerization interface [polypeptide binding]; other site 537457004623 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 537457004624 ATP binding site [chemical binding]; other site 537457004625 Acylphosphatase; Region: Acylphosphatase; pfam00708 537457004626 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 537457004627 HypF finger; Region: zf-HYPF; pfam07503 537457004628 HypF finger; Region: zf-HYPF; pfam07503 537457004629 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 537457004630 hydrogenase 2 small subunit; Provisional; Region: PRK10468 537457004631 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 537457004632 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 537457004633 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 537457004634 4Fe-4S binding domain; Region: Fer4_6; pfam12837 537457004635 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 537457004636 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 537457004637 hydrogenase 2 large subunit; Provisional; Region: PRK10467 537457004638 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 537457004639 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 537457004640 putative substrate-binding site; other site 537457004641 nickel binding site [ion binding]; other site 537457004642 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 537457004643 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 537457004644 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 537457004645 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 537457004646 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 537457004647 putative Mg++ binding site [ion binding]; other site 537457004648 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 537457004649 nucleotide binding region [chemical binding]; other site 537457004650 ATP-binding site [chemical binding]; other site 537457004651 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 537457004652 transcription-repair coupling factor; Provisional; Region: PRK10689 537457004653 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 537457004654 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 537457004655 ATP binding site [chemical binding]; other site 537457004656 aminopeptidase N; Provisional; Region: pepN; PRK14015 537457004657 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 537457004658 active site 537457004659 Zn binding site [ion binding]; other site 537457004660 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 537457004661 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 537457004662 homooctamer interface [polypeptide binding]; other site 537457004663 active site 537457004664 cytidine deaminase; Provisional; Region: PRK09027 537457004665 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 537457004666 active site 537457004667 catalytic motif [active] 537457004668 Zn binding site [ion binding]; other site 537457004669 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 537457004670 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 537457004671 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 537457004672 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 537457004673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457004674 Walker A/P-loop; other site 537457004675 ATP binding site [chemical binding]; other site 537457004676 Q-loop/lid; other site 537457004677 ABC transporter signature motif; other site 537457004678 Walker B; other site 537457004679 D-loop; other site 537457004680 H-loop/switch region; other site 537457004681 Violaxanthin de-epoxidase (VDE); Region: VDE; cl06253 537457004682 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 537457004683 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 537457004684 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 537457004685 P loop; other site 537457004686 GTP binding site [chemical binding]; other site 537457004687 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 537457004688 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 537457004689 dsDNA-mimic protein; Reviewed; Region: PRK05094 537457004690 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 537457004691 tellurite resistance protein TehB; Provisional; Region: PRK12335 537457004692 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 537457004693 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 537457004694 S-adenosylmethionine binding site [chemical binding]; other site 537457004695 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 537457004696 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 537457004697 dimer interface [polypeptide binding]; other site 537457004698 conserved gate region; other site 537457004699 putative PBP binding loops; other site 537457004700 ABC-ATPase subunit interface; other site 537457004701 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 537457004702 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 537457004703 dimer interface [polypeptide binding]; other site 537457004704 conserved gate region; other site 537457004705 putative PBP binding loops; other site 537457004706 ABC-ATPase subunit interface; other site 537457004707 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 537457004708 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 537457004709 substrate binding pocket [chemical binding]; other site 537457004710 membrane-bound complex binding site; other site 537457004711 hinge residues; other site 537457004712 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 537457004713 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 537457004714 Walker A/P-loop; other site 537457004715 ATP binding site [chemical binding]; other site 537457004716 Q-loop/lid; other site 537457004717 ABC transporter signature motif; other site 537457004718 Walker B; other site 537457004719 D-loop; other site 537457004720 H-loop/switch region; other site 537457004721 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 537457004722 substrate binding site [chemical binding]; other site 537457004723 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 537457004724 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 537457004725 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 537457004726 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 537457004727 salt bridge; other site 537457004728 non-specific DNA binding site [nucleotide binding]; other site 537457004729 sequence-specific DNA binding site [nucleotide binding]; other site 537457004730 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 537457004731 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 537457004732 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 537457004733 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 537457004734 DsbD alpha interface [polypeptide binding]; other site 537457004735 catalytic residues [active] 537457004736 Protein of unknown function, DUF462; Region: DUF462; pfam04315 537457004737 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 537457004738 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 537457004739 putative SAM binding site [chemical binding]; other site 537457004740 putative homodimer interface [polypeptide binding]; other site 537457004741 LppC putative lipoprotein; Region: LppC; pfam04348 537457004742 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 537457004743 putative ligand binding site [chemical binding]; other site 537457004744 hypothetical protein; Reviewed; Region: PRK12497 537457004745 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 537457004746 dimer interface [polypeptide binding]; other site 537457004747 active site 537457004748 outer membrane lipoprotein; Provisional; Region: PRK11023 537457004749 BON domain; Region: BON; pfam04972 537457004750 bacterial OsmY and nodulation domain; Region: BON; smart00749 537457004751 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 537457004752 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 537457004753 substrate binding pocket [chemical binding]; other site 537457004754 membrane-bound complex binding site; other site 537457004755 hinge residues; other site 537457004756 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 537457004757 N-acetyl-D-glucosamine binding site [chemical binding]; other site 537457004758 catalytic residue [active] 537457004759 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 537457004760 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 537457004761 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 537457004762 heme exporter protein CcmC; Region: ccmC; TIGR01191 537457004763 heme exporter protein CcmB; Region: ccmB; TIGR01190 537457004764 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 537457004765 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457004766 Walker A/P-loop; other site 537457004767 ATP binding site [chemical binding]; other site 537457004768 Q-loop/lid; other site 537457004769 ABC transporter signature motif; other site 537457004770 Walker B; other site 537457004771 D-loop; other site 537457004772 H-loop/switch region; other site 537457004773 DNA replication initiation factor; Validated; Region: PRK06893 537457004774 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 537457004775 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 537457004776 oxaloacetate decarboxylase; Provisional; Region: PRK14040 537457004777 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 537457004778 active site 537457004779 catalytic residues [active] 537457004780 metal binding site [ion binding]; metal-binding site 537457004781 homodimer binding site [polypeptide binding]; other site 537457004782 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 537457004783 carboxyltransferase (CT) interaction site; other site 537457004784 biotinylation site [posttranslational modification]; other site 537457004785 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 537457004786 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 537457004787 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 537457004788 PhnA protein; Region: PhnA; pfam03831 537457004789 Haem-binding domain; Region: Haem_bd; pfam14376 537457004790 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 537457004791 hypothetical protein; Validated; Region: PRK05090 537457004792 YGGT family; Region: YGGT; pfam02325 537457004793 YGGT family; Region: YGGT; pfam02325 537457004794 hypothetical protein; Provisional; Region: PRK11702 537457004795 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 537457004796 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 537457004797 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 537457004798 dimer interface [polypeptide binding]; other site 537457004799 active site 537457004800 CoA binding pocket [chemical binding]; other site 537457004801 putative phosphate acyltransferase; Provisional; Region: PRK05331 537457004802 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 537457004803 hypothetical protein; Provisional; Region: PRK11193 537457004804 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 537457004805 hypothetical protein; Provisional; Region: PRK11573 537457004806 Domain of unknown function DUF21; Region: DUF21; pfam01595 537457004807 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 537457004808 Transporter associated domain; Region: CorC_HlyC; smart01091 537457004809 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 537457004810 Na2 binding site [ion binding]; other site 537457004811 putative substrate binding site 1 [chemical binding]; other site 537457004812 Na binding site 1 [ion binding]; other site 537457004813 putative substrate binding site 2 [chemical binding]; other site 537457004814 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 537457004815 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 537457004816 active pocket/dimerization site; other site 537457004817 active site 537457004818 phosphorylation site [posttranslational modification] 537457004819 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 537457004820 active site 537457004821 phosphorylation site [posttranslational modification] 537457004822 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 537457004823 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 537457004824 hypothetical protein; Provisional; Region: PRK02913 537457004825 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 537457004826 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 537457004827 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 537457004828 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 537457004829 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 537457004830 HlyD family secretion protein; Region: HlyD_3; pfam13437 537457004831 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 537457004832 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 537457004833 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 537457004834 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 537457004835 Walker A/P-loop; other site 537457004836 ATP binding site [chemical binding]; other site 537457004837 Q-loop/lid; other site 537457004838 ABC transporter signature motif; other site 537457004839 Walker B; other site 537457004840 D-loop; other site 537457004841 H-loop/switch region; other site 537457004842 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 537457004843 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 537457004844 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 537457004845 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 537457004846 dimer interface [polypeptide binding]; other site 537457004847 conserved gate region; other site 537457004848 putative PBP binding loops; other site 537457004849 ABC-ATPase subunit interface; other site 537457004850 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 537457004851 dimer interface [polypeptide binding]; other site 537457004852 conserved gate region; other site 537457004853 putative PBP binding loops; other site 537457004854 ABC-ATPase subunit interface; other site 537457004855 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 537457004856 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 537457004857 Walker A/P-loop; other site 537457004858 ATP binding site [chemical binding]; other site 537457004859 Q-loop/lid; other site 537457004860 ABC transporter signature motif; other site 537457004861 Walker B; other site 537457004862 D-loop; other site 537457004863 H-loop/switch region; other site 537457004864 TOBE domain; Region: TOBE_2; pfam08402 537457004865 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 537457004866 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 537457004867 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 537457004868 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 537457004869 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 537457004870 AMP binding site [chemical binding]; other site 537457004871 metal binding site [ion binding]; metal-binding site 537457004872 active site 537457004873 Transposase, Mutator family; Region: Transposase_mut; pfam00872 537457004874 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 537457004875 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 537457004876 ligand binding site [chemical binding]; other site 537457004877 NAD binding site [chemical binding]; other site 537457004878 tetramer interface [polypeptide binding]; other site 537457004879 catalytic site [active] 537457004880 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 537457004881 L-serine binding site [chemical binding]; other site 537457004882 ACT domain interface; other site 537457004883 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 537457004884 tetramer (dimer of dimers) interface [polypeptide binding]; other site 537457004885 active site 537457004886 dimer interface [polypeptide binding]; other site 537457004887 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 537457004888 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 537457004889 active site 537457004890 substrate binding site [chemical binding]; other site 537457004891 metal binding site [ion binding]; metal-binding site 537457004892 threonine dehydratase; Reviewed; Region: PRK09224 537457004893 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 537457004894 tetramer interface [polypeptide binding]; other site 537457004895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457004896 catalytic residue [active] 537457004897 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 537457004898 putative Ile/Val binding site [chemical binding]; other site 537457004899 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 537457004900 putative Ile/Val binding site [chemical binding]; other site 537457004901 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 537457004902 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 537457004903 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 537457004904 amphipathic channel; other site 537457004905 Asn-Pro-Ala signature motifs; other site 537457004906 Uncharacterized conserved protein [Function unknown]; Region: COG2968 537457004907 Protein of unknown function (DUF541); Region: SIMPL; cl01077 537457004908 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 537457004909 homodimer interaction site [polypeptide binding]; other site 537457004910 cofactor binding site; other site 537457004911 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 537457004912 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 537457004913 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 537457004914 UbiA prenyltransferase family; Region: UbiA; pfam01040 537457004915 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 537457004916 Chain length determinant protein; Region: Wzz; pfam02706 537457004917 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 537457004918 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 537457004919 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 537457004920 NAD binding site [chemical binding]; other site 537457004921 substrate binding site [chemical binding]; other site 537457004922 homodimer interface [polypeptide binding]; other site 537457004923 active site 537457004924 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 537457004925 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 537457004926 substrate binding site; other site 537457004927 tetramer interface; other site 537457004928 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 537457004929 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 537457004930 NADP binding site [chemical binding]; other site 537457004931 active site 537457004932 putative substrate binding site [chemical binding]; other site 537457004933 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 537457004934 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 537457004935 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 537457004936 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 537457004937 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 537457004938 active site 537457004939 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 537457004940 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 537457004941 active site 537457004942 O-Antigen ligase; Region: Wzy_C; pfam04932 537457004943 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 537457004944 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 537457004945 active site 537457004946 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 537457004947 Bacterial sugar transferase; Region: Bac_transf; pfam02397 537457004948 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 537457004949 DNA primase; Validated; Region: dnaG; PRK05667 537457004950 CHC2 zinc finger; Region: zf-CHC2; pfam01807 537457004951 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 537457004952 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 537457004953 active site 537457004954 metal binding site [ion binding]; metal-binding site 537457004955 interdomain interaction site; other site 537457004956 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 537457004957 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 537457004958 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 537457004959 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 537457004960 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 537457004961 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 537457004962 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 537457004963 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 537457004964 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 537457004965 DNA binding residues [nucleotide binding] 537457004966 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 537457004967 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 537457004968 active site 537457004969 HIGH motif; other site 537457004970 dimer interface [polypeptide binding]; other site 537457004971 KMSKS motif; other site 537457004972 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 537457004973 RNA binding surface [nucleotide binding]; other site 537457004974 ribonuclease R; Region: RNase_R; TIGR02063 537457004975 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 537457004976 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 537457004977 RNB domain; Region: RNB; pfam00773 537457004978 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 537457004979 RNA binding site [nucleotide binding]; other site 537457004980 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 537457004981 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 537457004982 catalytic residues [active] 537457004983 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 537457004984 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 537457004985 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 537457004986 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457004987 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 537457004988 dimerization interface [polypeptide binding]; other site 537457004989 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 537457004990 catalytic triad [active] 537457004991 dimer interface [polypeptide binding]; other site 537457004992 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 537457004993 Transposase, Mutator family; Region: Transposase_mut; pfam00872 537457004994 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 537457004995 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 537457004996 metal binding site [ion binding]; metal-binding site 537457004997 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 537457004998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 537457004999 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 537457005000 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 537457005001 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 537457005002 homodimer interface [polypeptide binding]; other site 537457005003 oligonucleotide binding site [chemical binding]; other site 537457005004 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 537457005005 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457005006 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457005007 HTH-like domain; Region: HTH_21; pfam13276 537457005008 Integrase core domain; Region: rve; pfam00665 537457005009 Integrase core domain; Region: rve; pfam00665 537457005010 Integrase core domain; Region: rve_2; pfam13333 537457005011 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 537457005012 ferredoxin-type protein; Provisional; Region: PRK10194 537457005013 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 537457005014 NapD protein; Region: NapD; pfam03927 537457005015 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 537457005016 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 537457005017 [4Fe-4S] binding site [ion binding]; other site 537457005018 molybdopterin cofactor binding site; other site 537457005019 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 537457005020 molybdopterin cofactor binding site; other site 537457005021 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 537457005022 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 537457005023 4Fe-4S binding domain; Region: Fer4_5; pfam12801 537457005024 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 537457005025 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 537457005026 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 537457005027 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 537457005028 membrane protein insertase; Provisional; Region: PRK01318 537457005029 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 537457005030 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 537457005031 CoenzymeA binding site [chemical binding]; other site 537457005032 subunit interaction site [polypeptide binding]; other site 537457005033 PHB binding site; other site 537457005034 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 537457005035 FAD binding domain; Region: FAD_binding_4; pfam01565 537457005036 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 537457005037 outer membrane protein A; Reviewed; Region: PRK10808 537457005038 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 537457005039 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 537457005040 ligand binding site [chemical binding]; other site 537457005041 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 537457005042 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 537457005043 ligand binding site [chemical binding]; other site 537457005044 calcium binding site [ion binding]; other site 537457005045 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457005046 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 537457005047 Walker A/P-loop; other site 537457005048 ATP binding site [chemical binding]; other site 537457005049 Q-loop/lid; other site 537457005050 ABC transporter signature motif; other site 537457005051 Walker B; other site 537457005052 D-loop; other site 537457005053 H-loop/switch region; other site 537457005054 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 537457005055 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 537457005056 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 537457005057 TM-ABC transporter signature motif; other site 537457005058 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 537457005059 Predicted membrane protein [Function unknown]; Region: COG4125 537457005060 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 537457005061 malate:quinone oxidoreductase; Validated; Region: PRK05257 537457005062 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 537457005063 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 537457005064 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 537457005065 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 537457005066 acyl-activating enzyme (AAE) consensus motif; other site 537457005067 putative AMP binding site [chemical binding]; other site 537457005068 putative active site [active] 537457005069 putative CoA binding site [chemical binding]; other site 537457005070 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 537457005071 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 537457005072 active site 537457005073 catalytic tetrad [active] 537457005074 Protein of unknown function (DUF406); Region: DUF406; pfam04175 537457005075 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 537457005076 aromatic amino acid transport protein; Region: araaP; TIGR00837 537457005077 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 537457005078 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 537457005079 DNA binding residues [nucleotide binding] 537457005080 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 537457005081 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 537457005082 ATP-grasp domain; Region: ATP-grasp_4; cl17255 537457005083 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 537457005084 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 537457005085 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 537457005086 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 537457005087 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 537457005088 active site 537457005089 DNA binding site [nucleotide binding] 537457005090 Int/Topo IB signature motif; other site 537457005091 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 537457005092 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 537457005093 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 537457005094 Virulence protein [General function prediction only]; Region: COG3943 537457005095 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 537457005096 HsdM N-terminal domain; Region: HsdM_N; pfam12161 537457005097 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 537457005098 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 537457005099 S-adenosylmethionine binding site [chemical binding]; other site 537457005100 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 537457005101 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 537457005102 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 537457005103 ATP binding site [chemical binding]; other site 537457005104 putative Mg++ binding site [ion binding]; other site 537457005105 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 537457005106 nucleotide binding region [chemical binding]; other site 537457005107 ATP-binding site [chemical binding]; other site 537457005108 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 537457005109 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 537457005110 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 537457005111 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 537457005112 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 537457005113 putative active site [active] 537457005114 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 537457005115 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 537457005116 putative active site [active] 537457005117 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 537457005118 S17 interaction site [polypeptide binding]; other site 537457005119 S8 interaction site; other site 537457005120 16S rRNA interaction site [nucleotide binding]; other site 537457005121 streptomycin interaction site [chemical binding]; other site 537457005122 23S rRNA interaction site [nucleotide binding]; other site 537457005123 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 537457005124 30S ribosomal protein S7; Validated; Region: PRK05302 537457005125 elongation factor G; Reviewed; Region: PRK00007 537457005126 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 537457005127 G1 box; other site 537457005128 putative GEF interaction site [polypeptide binding]; other site 537457005129 GTP/Mg2+ binding site [chemical binding]; other site 537457005130 Switch I region; other site 537457005131 G2 box; other site 537457005132 G3 box; other site 537457005133 Switch II region; other site 537457005134 G4 box; other site 537457005135 G5 box; other site 537457005136 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 537457005137 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 537457005138 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 537457005139 elongation factor Tu; Reviewed; Region: PRK00049 537457005140 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 537457005141 G1 box; other site 537457005142 GEF interaction site [polypeptide binding]; other site 537457005143 GTP/Mg2+ binding site [chemical binding]; other site 537457005144 Switch I region; other site 537457005145 G2 box; other site 537457005146 G3 box; other site 537457005147 Switch II region; other site 537457005148 G4 box; other site 537457005149 G5 box; other site 537457005150 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 537457005151 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 537457005152 Antibiotic Binding Site [chemical binding]; other site 537457005153 Transposase, Mutator family; Region: Transposase_mut; pfam00872 537457005154 Winged helix-turn helix; Region: HTH_29; pfam13551 537457005155 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457005156 Integrase core domain; Region: rve; pfam00665 537457005157 Integrase core domain; Region: rve_3; pfam13683 537457005158 MULE transposase domain; Region: MULE; pfam10551 537457005159 pyridoxamine kinase; Validated; Region: PRK05756 537457005160 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 537457005161 dimer interface [polypeptide binding]; other site 537457005162 pyridoxal binding site [chemical binding]; other site 537457005163 ATP binding site [chemical binding]; other site 537457005164 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 537457005165 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 537457005166 FtsI repressor; Provisional; Region: PRK10883 537457005167 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 537457005168 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 537457005169 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 537457005170 putative acyl-acceptor binding pocket; other site 537457005171 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 537457005172 dimer interface [polypeptide binding]; other site 537457005173 catalytic triad [active] 537457005174 peroxidatic and resolving cysteines [active] 537457005175 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 537457005176 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 537457005177 trmE is a tRNA modification GTPase; Region: trmE; cd04164 537457005178 G1 box; other site 537457005179 GTP/Mg2+ binding site [chemical binding]; other site 537457005180 Switch I region; other site 537457005181 G2 box; other site 537457005182 Switch II region; other site 537457005183 G3 box; other site 537457005184 G4 box; other site 537457005185 G5 box; other site 537457005186 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 537457005187 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 537457005188 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 537457005189 Pirin-related protein [General function prediction only]; Region: COG1741 537457005190 Pirin; Region: Pirin; pfam02678 537457005191 Ferritin-like domain; Region: Ferritin; pfam00210 537457005192 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 537457005193 dimerization interface [polypeptide binding]; other site 537457005194 DPS ferroxidase diiron center [ion binding]; other site 537457005195 ion pore; other site 537457005196 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 537457005197 non-specific DNA binding site [nucleotide binding]; other site 537457005198 salt bridge; other site 537457005199 sequence-specific DNA binding site [nucleotide binding]; other site 537457005200 Patatin-like phospholipase; Region: Patatin; pfam01734 537457005201 active site 537457005202 nucleophile elbow; other site 537457005203 TIGR01666 family membrane protein; Region: YCCS 537457005204 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 537457005205 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 537457005206 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 537457005207 active site 537457005208 dimer interfaces [polypeptide binding]; other site 537457005209 catalytic residues [active] 537457005210 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 537457005211 threonine synthase; Validated; Region: PRK09225 537457005212 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 537457005213 catalytic residue [active] 537457005214 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 537457005215 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457005216 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457005217 HTH-like domain; Region: HTH_21; pfam13276 537457005218 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 537457005219 Integrase core domain; Region: rve; pfam00665 537457005220 Integrase core domain; Region: rve_2; pfam13333 537457005221 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 537457005222 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 537457005223 HIGH motif; other site 537457005224 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 537457005225 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 537457005226 active site 537457005227 KMSKS motif; other site 537457005228 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 537457005229 tRNA binding surface [nucleotide binding]; other site 537457005230 anticodon binding site; other site 537457005231 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 537457005232 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 537457005233 Coenzyme A binding pocket [chemical binding]; other site 537457005234 DNA polymerase III subunit chi; Validated; Region: PRK05728 537457005235 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 537457005236 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 537457005237 trigger factor; Provisional; Region: tig; PRK01490 537457005238 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 537457005239 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 537457005240 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 537457005241 active site residue [active] 537457005242 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 537457005243 SecA binding site; other site 537457005244 Preprotein binding site; other site 537457005245 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 537457005246 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 537457005247 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 537457005248 serine acetyltransferase; Provisional; Region: cysE; PRK11132 537457005249 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 537457005250 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 537457005251 trimer interface [polypeptide binding]; other site 537457005252 active site 537457005253 substrate binding site [chemical binding]; other site 537457005254 CoA binding site [chemical binding]; other site 537457005255 elongation factor Tu; Reviewed; Region: PRK00049 537457005256 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 537457005257 G1 box; other site 537457005258 GEF interaction site [polypeptide binding]; other site 537457005259 GTP/Mg2+ binding site [chemical binding]; other site 537457005260 Switch I region; other site 537457005261 G2 box; other site 537457005262 G3 box; other site 537457005263 Switch II region; other site 537457005264 G4 box; other site 537457005265 G5 box; other site 537457005266 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 537457005267 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 537457005268 Antibiotic Binding Site [chemical binding]; other site 537457005269 pantothenate kinase; Provisional; Region: PRK05439 537457005270 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 537457005271 ATP-binding site [chemical binding]; other site 537457005272 CoA-binding site [chemical binding]; other site 537457005273 Mg2+-binding site [ion binding]; other site 537457005274 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 537457005275 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 537457005276 catalytic residues [active] 537457005277 central insert; other site 537457005278 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 537457005279 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 537457005280 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 537457005281 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 537457005282 binding surface 537457005283 TPR motif; other site 537457005284 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 537457005285 MPT binding site; other site 537457005286 trimer interface [polypeptide binding]; other site 537457005287 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 537457005288 Nitrogen regulatory protein P-II; Region: P-II; smart00938 537457005289 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 537457005290 lipoprotein signal peptidase; Provisional; Region: PRK14787 537457005291 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 537457005292 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 537457005293 Uncharacterized conserved protein [Function unknown]; Region: COG2938 537457005294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 537457005295 NADH(P)-binding; Region: NAD_binding_10; pfam13460 537457005296 NAD(P) binding site [chemical binding]; other site 537457005297 active site 537457005298 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 537457005299 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 537457005300 FeS/SAM binding site; other site 537457005301 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 537457005302 glutathionine S-transferase; Provisional; Region: PRK10542 537457005303 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 537457005304 C-terminal domain interface [polypeptide binding]; other site 537457005305 GSH binding site (G-site) [chemical binding]; other site 537457005306 dimer interface [polypeptide binding]; other site 537457005307 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 537457005308 dimer interface [polypeptide binding]; other site 537457005309 N-terminal domain interface [polypeptide binding]; other site 537457005310 substrate binding pocket (H-site) [chemical binding]; other site 537457005311 diaminopimelate decarboxylase; Region: lysA; TIGR01048 537457005312 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 537457005313 active site 537457005314 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 537457005315 substrate binding site [chemical binding]; other site 537457005316 catalytic residues [active] 537457005317 dimer interface [polypeptide binding]; other site 537457005318 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 537457005319 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 537457005320 Iron-sulfur protein interface; other site 537457005321 proximal quinone binding site [chemical binding]; other site 537457005322 C-subunit interface; other site 537457005323 distal quinone binding site; other site 537457005324 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 537457005325 D-subunit interface [polypeptide binding]; other site 537457005326 Iron-sulfur protein interface; other site 537457005327 proximal quinone binding site [chemical binding]; other site 537457005328 distal quinone binding site [chemical binding]; other site 537457005329 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 537457005330 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 537457005331 catalytic loop [active] 537457005332 iron binding site [ion binding]; other site 537457005333 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 537457005334 L-aspartate oxidase; Provisional; Region: PRK06175 537457005335 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 537457005336 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 537457005337 poxB regulator PoxA; Provisional; Region: PRK09350 537457005338 motif 1; other site 537457005339 dimer interface [polypeptide binding]; other site 537457005340 active site 537457005341 motif 2; other site 537457005342 motif 3; other site 537457005343 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 537457005344 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 537457005345 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 537457005346 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 537457005347 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 537457005348 chromosome condensation membrane protein; Provisional; Region: PRK14196 537457005349 Major Facilitator Superfamily; Region: MFS_1; pfam07690 537457005350 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 537457005351 putative substrate translocation pore; other site 537457005352 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 537457005353 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 537457005354 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 537457005355 putative active site [active] 537457005356 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 537457005357 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 537457005358 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 537457005359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 537457005360 protease TldD; Provisional; Region: tldD; PRK10735 537457005361 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 537457005362 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 537457005363 Ligand Binding Site [chemical binding]; other site 537457005364 TilS substrate binding domain; Region: TilS; pfam09179 537457005365 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 537457005366 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 537457005367 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 537457005368 active site 537457005369 Int/Topo IB signature motif; other site 537457005370 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 537457005371 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 537457005372 putative common antigen polymerase; Provisional; Region: PRK02975 537457005373 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 537457005374 hybrid cluster protein; Provisional; Region: PRK05290 537457005375 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 537457005376 ACS interaction site; other site 537457005377 CODH interaction site; other site 537457005378 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 537457005379 CODH interaction site; other site 537457005380 metal cluster binding site [ion binding]; other site 537457005381 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 537457005382 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 537457005383 FAD binding pocket [chemical binding]; other site 537457005384 FAD binding motif [chemical binding]; other site 537457005385 phosphate binding motif [ion binding]; other site 537457005386 beta-alpha-beta structure motif; other site 537457005387 NAD binding pocket [chemical binding]; other site 537457005388 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 537457005389 catalytic loop [active] 537457005390 iron binding site [ion binding]; other site 537457005391 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 537457005392 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 537457005393 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 537457005394 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 537457005395 inhibitor-cofactor binding pocket; inhibition site 537457005396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457005397 catalytic residue [active] 537457005398 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 537457005399 Coenzyme A binding pocket [chemical binding]; other site 537457005400 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 537457005401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 537457005402 NAD(P) binding site [chemical binding]; other site 537457005403 active site 537457005404 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 537457005405 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 537457005406 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 537457005407 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 537457005408 active site 537457005409 homodimer interface [polypeptide binding]; other site 537457005410 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 537457005411 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 537457005412 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 537457005413 Mg++ binding site [ion binding]; other site 537457005414 putative catalytic motif [active] 537457005415 substrate binding site [chemical binding]; other site 537457005416 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 537457005417 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 537457005418 inhibitor-cofactor binding pocket; inhibition site 537457005419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457005420 catalytic residue [active] 537457005421 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 537457005422 Major Facilitator Superfamily; Region: MFS_1; pfam07690 537457005423 putative substrate translocation pore; other site 537457005424 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 537457005425 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 537457005426 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 537457005427 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 537457005428 TrkA-N domain; Region: TrkA_N; pfam02254 537457005429 TrkA-C domain; Region: TrkA_C; pfam02080 537457005430 TrkA-N domain; Region: TrkA_N; pfam02254 537457005431 TrkA-C domain; Region: TrkA_C; pfam02080 537457005432 16S rRNA methyltransferase B; Provisional; Region: PRK10901 537457005433 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 537457005434 putative RNA binding site [nucleotide binding]; other site 537457005435 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 537457005436 S-adenosylmethionine binding site [chemical binding]; other site 537457005437 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 537457005438 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 537457005439 G1 box; other site 537457005440 putative GEF interaction site [polypeptide binding]; other site 537457005441 GTP/Mg2+ binding site [chemical binding]; other site 537457005442 Switch I region; other site 537457005443 G2 box; other site 537457005444 G3 box; other site 537457005445 Switch II region; other site 537457005446 G4 box; other site 537457005447 G5 box; other site 537457005448 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 537457005449 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 537457005450 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 537457005451 DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is...; Region: DEP; cl02442 537457005452 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 537457005453 selenocysteine synthase; Provisional; Region: PRK04311 537457005454 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 537457005455 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 537457005456 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 537457005457 catalytic residue [active] 537457005458 FMN-binding protein MioC; Provisional; Region: PRK09004 537457005459 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 537457005460 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 537457005461 putative N- and C-terminal domain interface [polypeptide binding]; other site 537457005462 putative active site [active] 537457005463 MgATP binding site [chemical binding]; other site 537457005464 catalytic site [active] 537457005465 metal binding site [ion binding]; metal-binding site 537457005466 putative xylulose binding site [chemical binding]; other site 537457005467 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 537457005468 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 537457005469 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 537457005470 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 537457005471 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 537457005472 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 537457005473 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 537457005474 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 537457005475 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 537457005476 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 537457005477 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 537457005478 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 537457005479 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 537457005480 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 537457005481 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 537457005482 Tetratricopeptide repeat; Region: TPR_16; pfam13432 537457005483 TPR motif; other site 537457005484 binding surface 537457005485 TPR repeat; Region: TPR_11; pfam13414 537457005486 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 537457005487 binding surface 537457005488 TPR motif; other site 537457005489 TPR repeat; Region: TPR_11; pfam13414 537457005490 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 537457005491 binding surface 537457005492 TPR motif; other site 537457005493 TPR repeat; Region: TPR_11; pfam13414 537457005494 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 537457005495 binding surface 537457005496 TPR motif; other site 537457005497 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 537457005498 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 537457005499 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 537457005500 putative ADP-binding pocket [chemical binding]; other site 537457005501 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 537457005502 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 537457005503 LicD family; Region: LicD; pfam04991 537457005504 glycerol-3-phosphate cytidylyltransferase; Region: G3P_Cytidylyltransferase; cd02171 537457005505 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 537457005506 active site 537457005507 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 537457005508 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 537457005509 Helix-turn-helix domain; Region: HTH_38; pfam13936 537457005510 Integrase core domain; Region: rve; pfam00665 537457005511 polysaccharide export protein Wza; Provisional; Region: PRK15078 537457005512 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 537457005513 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 537457005514 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 537457005515 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 537457005516 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 537457005517 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 537457005518 Walker A/P-loop; other site 537457005519 ATP binding site [chemical binding]; other site 537457005520 Q-loop/lid; other site 537457005521 ABC transporter signature motif; other site 537457005522 Walker B; other site 537457005523 D-loop; other site 537457005524 H-loop/switch region; other site 537457005525 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 537457005526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457005527 Walker A/P-loop; other site 537457005528 ATP binding site [chemical binding]; other site 537457005529 Q-loop/lid; other site 537457005530 ABC transporter signature motif; other site 537457005531 Walker B; other site 537457005532 D-loop; other site 537457005533 H-loop/switch region; other site 537457005534 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457005535 Walker A/P-loop; other site 537457005536 ATP binding site [chemical binding]; other site 537457005537 Q-loop/lid; other site 537457005538 ABC transporter signature motif; other site 537457005539 Walker B; other site 537457005540 D-loop; other site 537457005541 H-loop/switch region; other site 537457005542 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 537457005543 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 537457005544 putative active site [active] 537457005545 substrate binding site [chemical binding]; other site 537457005546 putative cosubstrate binding site; other site 537457005547 catalytic site [active] 537457005548 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 537457005549 substrate binding site [chemical binding]; other site 537457005550 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 537457005551 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 537457005552 hypothetical protein; Provisional; Region: PRK11568 537457005553 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 537457005554 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 537457005555 Cation transport protein; Region: TrkH; cl17365 537457005556 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 537457005557 Flavodoxin domain; Region: Flavodoxin_5; cl17428 537457005558 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 537457005559 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 537457005560 lipoyl synthase; Provisional; Region: PRK05481 537457005561 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 537457005562 FeS/SAM binding site; other site 537457005563 lipoate-protein ligase B; Provisional; Region: PRK14342 537457005564 hypothetical protein; Provisional; Region: PRK04998 537457005565 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 537457005566 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 537457005567 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 537457005568 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 537457005569 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 537457005570 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 537457005571 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 537457005572 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 537457005573 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 537457005574 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 537457005575 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 537457005576 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 537457005577 MutS domain I; Region: MutS_I; pfam01624 537457005578 MutS domain II; Region: MutS_II; pfam05188 537457005579 MutS domain III; Region: MutS_III; pfam05192 537457005580 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 537457005581 Walker A/P-loop; other site 537457005582 ATP binding site [chemical binding]; other site 537457005583 Q-loop/lid; other site 537457005584 ABC transporter signature motif; other site 537457005585 Walker B; other site 537457005586 D-loop; other site 537457005587 H-loop/switch region; other site 537457005588 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 537457005589 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 537457005590 Walker A/P-loop; other site 537457005591 ATP binding site [chemical binding]; other site 537457005592 Q-loop/lid; other site 537457005593 ABC transporter signature motif; other site 537457005594 Walker B; other site 537457005595 D-loop; other site 537457005596 H-loop/switch region; other site 537457005597 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 537457005598 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 537457005599 dimer interface [polypeptide binding]; other site 537457005600 conserved gate region; other site 537457005601 putative PBP binding loops; other site 537457005602 ABC-ATPase subunit interface; other site 537457005603 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 537457005604 Hemerythrin-like domain; Region: Hr-like; cd12108 537457005605 Fe binding site [ion binding]; other site 537457005606 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 537457005607 conserved hypothetical protein; Region: TIGR00743 537457005608 Protein of unknown function (DUF533); Region: DUF533; pfam04391 537457005609 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 537457005610 putative metal binding site [ion binding]; other site 537457005611 Uncharacterized conserved protein [Function unknown]; Region: COG1359 537457005612 UreD urease accessory protein; Region: UreD; cl00530 537457005613 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 537457005614 G1 box; other site 537457005615 GTP/Mg2+ binding site [chemical binding]; other site 537457005616 G2 box; other site 537457005617 Switch I region; other site 537457005618 G3 box; other site 537457005619 Switch II region; other site 537457005620 G4 box; other site 537457005621 G5 box; other site 537457005622 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 537457005623 UreF; Region: UreF; pfam01730 537457005624 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 537457005625 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 537457005626 dimer interface [polypeptide binding]; other site 537457005627 catalytic residues [active] 537457005628 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 537457005629 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 537457005630 putative C-terminal domain interface [polypeptide binding]; other site 537457005631 putative GSH binding site (G-site) [chemical binding]; other site 537457005632 putative dimer interface [polypeptide binding]; other site 537457005633 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 537457005634 N-terminal domain interface [polypeptide binding]; other site 537457005635 dimer interface [polypeptide binding]; other site 537457005636 substrate binding pocket (H-site) [chemical binding]; other site 537457005637 urease subunit alpha; Reviewed; Region: ureC; PRK13207 537457005638 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 537457005639 subunit interactions [polypeptide binding]; other site 537457005640 active site 537457005641 flap region; other site 537457005642 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 537457005643 gamma-beta subunit interface [polypeptide binding]; other site 537457005644 alpha-beta subunit interface [polypeptide binding]; other site 537457005645 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 537457005646 alpha-gamma subunit interface [polypeptide binding]; other site 537457005647 beta-gamma subunit interface [polypeptide binding]; other site 537457005648 Urea transporter; Region: UT; pfam03253 537457005649 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 537457005650 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 537457005651 Walker A/P-loop; other site 537457005652 ATP binding site [chemical binding]; other site 537457005653 Q-loop/lid; other site 537457005654 ABC transporter signature motif; other site 537457005655 Walker B; other site 537457005656 D-loop; other site 537457005657 H-loop/switch region; other site 537457005658 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 537457005659 cobalt transport protein CbiM; Validated; Region: PRK06265 537457005660 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 537457005661 Transcriptional regulator [Transcription]; Region: LysR; COG0583 537457005662 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457005663 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 537457005664 dimerization interface [polypeptide binding]; other site 537457005665 putative effector binding pocket; other site 537457005666 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 537457005667 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 537457005668 transmembrane helices; other site 537457005669 TrkA-C domain; Region: TrkA_C; pfam02080 537457005670 TrkA-C domain; Region: TrkA_C; pfam02080 537457005671 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 537457005672 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 537457005673 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 537457005674 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 537457005675 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 537457005676 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 537457005677 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 537457005678 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 537457005679 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 537457005680 active site 537457005681 P-loop; other site 537457005682 phosphorylation site [posttranslational modification] 537457005683 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 537457005684 active site 537457005685 phosphorylation site [posttranslational modification] 537457005686 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 537457005687 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 537457005688 glutaminase active site [active] 537457005689 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 537457005690 dimer interface [polypeptide binding]; other site 537457005691 active site 537457005692 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 537457005693 dimer interface [polypeptide binding]; other site 537457005694 active site 537457005695 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 537457005696 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 537457005697 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 537457005698 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 537457005699 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 537457005700 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 537457005701 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 537457005702 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 537457005703 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 537457005704 FeS/SAM binding site; other site 537457005705 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 537457005706 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 537457005707 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 537457005708 catalytic residues [active] 537457005709 hinge region; other site 537457005710 alpha helical domain; other site 537457005711 hypothetical protein; Provisional; Region: PRK02119 537457005712 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 537457005713 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 537457005714 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 537457005715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 537457005716 YheO-like PAS domain; Region: PAS_6; pfam08348 537457005717 HTH domain; Region: HTH_22; pfam13309 537457005718 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 537457005719 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 537457005720 DsrH like protein; Region: DsrH; cl17347 537457005721 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 537457005722 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 537457005723 gamma subunit interface [polypeptide binding]; other site 537457005724 epsilon subunit interface [polypeptide binding]; other site 537457005725 LBP interface [polypeptide binding]; other site 537457005726 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 537457005727 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 537457005728 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 537457005729 alpha subunit interaction interface [polypeptide binding]; other site 537457005730 Walker A motif; other site 537457005731 ATP binding site [chemical binding]; other site 537457005732 Walker B motif; other site 537457005733 inhibitor binding site; inhibition site 537457005734 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 537457005735 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 537457005736 core domain interface [polypeptide binding]; other site 537457005737 delta subunit interface [polypeptide binding]; other site 537457005738 epsilon subunit interface [polypeptide binding]; other site 537457005739 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 537457005740 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 537457005741 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 537457005742 beta subunit interaction interface [polypeptide binding]; other site 537457005743 Walker A motif; other site 537457005744 ATP binding site [chemical binding]; other site 537457005745 Walker B motif; other site 537457005746 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 537457005747 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 537457005748 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 537457005749 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 537457005750 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 537457005751 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 537457005752 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 537457005753 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 537457005754 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 537457005755 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 537457005756 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 537457005757 S-adenosylmethionine binding site [chemical binding]; other site 537457005758 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 537457005759 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 537457005760 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 537457005761 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 537457005762 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 537457005763 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 537457005764 active site 537457005765 motif I; other site 537457005766 motif II; other site 537457005767 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 537457005768 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 537457005769 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 537457005770 substrate binding pocket [chemical binding]; other site 537457005771 membrane-bound complex binding site; other site 537457005772 hinge residues; other site 537457005773 hypothetical protein; Provisional; Region: PRK01752 537457005774 SEC-C motif; Region: SEC-C; pfam02810 537457005775 SEC-C motif; Region: SEC-C; pfam02810 537457005776 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 537457005777 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 537457005778 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 537457005779 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 537457005780 active site 537457005781 active pocket/dimerization site; other site 537457005782 phosphorylation site [posttranslational modification] 537457005783 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 537457005784 active site 537457005785 phosphorylation site [posttranslational modification] 537457005786 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 537457005787 fructuronate transporter; Provisional; Region: PRK10034; cl15264 537457005788 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 537457005789 Shikimate kinase; Region: SKI; pfam01202 537457005790 ATP-binding site [chemical binding]; other site 537457005791 Gluconate-6-phosphate binding site [chemical binding]; other site 537457005792 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 537457005793 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 537457005794 DNA binding site [nucleotide binding] 537457005795 domain linker motif; other site 537457005796 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 537457005797 putative ligand binding site [chemical binding]; other site 537457005798 putative dimerization interface [polypeptide binding]; other site 537457005799 transcriptional repressor RbsR; Provisional; Region: PRK10423 537457005800 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 537457005801 DNA binding site [nucleotide binding] 537457005802 domain linker motif; other site 537457005803 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 537457005804 D-ribose pyranase; Provisional; Region: PRK11797 537457005805 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 537457005806 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 537457005807 Walker A/P-loop; other site 537457005808 ATP binding site [chemical binding]; other site 537457005809 Q-loop/lid; other site 537457005810 ABC transporter signature motif; other site 537457005811 Walker B; other site 537457005812 D-loop; other site 537457005813 H-loop/switch region; other site 537457005814 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 537457005815 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 537457005816 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 537457005817 TM-ABC transporter signature motif; other site 537457005818 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 537457005819 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 537457005820 ligand binding site [chemical binding]; other site 537457005821 dimerization interface [polypeptide binding]; other site 537457005822 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 537457005823 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 537457005824 substrate binding site [chemical binding]; other site 537457005825 dimer interface [polypeptide binding]; other site 537457005826 ATP binding site [chemical binding]; other site 537457005827 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 537457005828 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 537457005829 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 537457005830 putative [Fe4-S4] binding site [ion binding]; other site 537457005831 putative molybdopterin cofactor binding site [chemical binding]; other site 537457005832 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 537457005833 putative molybdopterin cofactor binding site; other site 537457005834 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 537457005835 4Fe-4S binding domain; Region: Fer4; cl02805 537457005836 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 537457005837 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 537457005838 ferredoxin-type protein NapF; Region: napF; TIGR00402 537457005839 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 537457005840 Methyltransferase domain; Region: Methyltransf_24; pfam13578 537457005841 Abi-like protein; Region: Abi_2; pfam07751 537457005842 Abi-like protein; Region: Abi_2; pfam07751 537457005843 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457005844 ABC transporter signature motif; other site 537457005845 Walker B; other site 537457005846 D-loop; other site 537457005847 H-loop/switch region; other site 537457005848 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 537457005849 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 537457005850 dimerization interface [polypeptide binding]; other site 537457005851 ATP binding site [chemical binding]; other site 537457005852 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 537457005853 dimerization interface [polypeptide binding]; other site 537457005854 ATP binding site [chemical binding]; other site 537457005855 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 537457005856 putative active site [active] 537457005857 catalytic triad [active] 537457005858 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 537457005859 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 537457005860 DNA-binding site [nucleotide binding]; DNA binding site 537457005861 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 537457005862 L-fucose isomerase; Provisional; Region: fucI; PRK10991 537457005863 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 537457005864 hexamer (dimer of trimers) interface [polypeptide binding]; other site 537457005865 trimer interface [polypeptide binding]; other site 537457005866 substrate binding site [chemical binding]; other site 537457005867 Mn binding site [ion binding]; other site 537457005868 L-fuculokinase; Provisional; Region: PRK10331 537457005869 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 537457005870 nucleotide binding site [chemical binding]; other site 537457005871 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 537457005872 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 537457005873 intersubunit interface [polypeptide binding]; other site 537457005874 active site 537457005875 Zn2+ binding site [ion binding]; other site 537457005876 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 537457005877 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 537457005878 putative substrate translocation pore; other site 537457005879 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 537457005880 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 537457005881 dimer interface [polypeptide binding]; other site 537457005882 active site 537457005883 metal binding site [ion binding]; metal-binding site 537457005884 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 537457005885 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 537457005886 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 537457005887 dimer interface [polypeptide binding]; other site 537457005888 conserved gate region; other site 537457005889 putative PBP binding loops; other site 537457005890 ABC-ATPase subunit interface; other site 537457005891 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 537457005892 dimer interface [polypeptide binding]; other site 537457005893 conserved gate region; other site 537457005894 putative PBP binding loops; other site 537457005895 ABC-ATPase subunit interface; other site 537457005896 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 537457005897 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 537457005898 Walker A/P-loop; other site 537457005899 ATP binding site [chemical binding]; other site 537457005900 Q-loop/lid; other site 537457005901 ABC transporter signature motif; other site 537457005902 Walker B; other site 537457005903 D-loop; other site 537457005904 H-loop/switch region; other site 537457005905 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 537457005906 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 537457005907 substrate binding pocket [chemical binding]; other site 537457005908 membrane-bound complex binding site; other site 537457005909 hinge residues; other site 537457005910 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 537457005911 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 537457005912 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 537457005913 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 537457005914 active site 537457005915 dimer interface [polypeptide binding]; other site 537457005916 magnesium binding site [ion binding]; other site 537457005917 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 537457005918 active site 537457005919 phosphorylation site [posttranslational modification] 537457005920 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 537457005921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 537457005922 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 537457005923 active site 537457005924 P-loop; other site 537457005925 phosphorylation site [posttranslational modification] 537457005926 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 537457005927 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 537457005928 transcriptional repressor UlaR; Provisional; Region: PRK13509 537457005929 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 537457005930 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 537457005931 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 537457005932 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 537457005933 AP (apurinic/apyrimidinic) site pocket; other site 537457005934 DNA interaction; other site 537457005935 Metal-binding active site; metal-binding site 537457005936 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 537457005937 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 537457005938 intersubunit interface [polypeptide binding]; other site 537457005939 active site 537457005940 Zn2+ binding site [ion binding]; other site 537457005941 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 537457005942 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 537457005943 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 537457005944 TPR repeat; Region: TPR_11; pfam13414 537457005945 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 537457005946 binding surface 537457005947 TPR motif; other site 537457005948 Protein of unknown function (DUF560); Region: DUF560; pfam04575 537457005949 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 537457005950 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 537457005951 NADP binding site [chemical binding]; other site 537457005952 homopentamer interface [polypeptide binding]; other site 537457005953 substrate binding site [chemical binding]; other site 537457005954 active site 537457005955 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 537457005956 active site 537457005957 catalytic residues [active] 537457005958 metal binding site [ion binding]; metal-binding site 537457005959 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 537457005960 DNA protecting protein DprA; Region: dprA; TIGR00732 537457005961 Predicted membrane protein [Function unknown]; Region: COG1297 537457005962 putative oligopeptide transporter, OPT family; Region: TIGR00733 537457005963 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 537457005964 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 537457005965 active site 537457005966 P-loop; other site 537457005967 phosphorylation site [posttranslational modification] 537457005968 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 537457005969 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 537457005970 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 537457005971 putative homodimer interface [polypeptide binding]; other site 537457005972 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 537457005973 heterodimer interface [polypeptide binding]; other site 537457005974 homodimer interface [polypeptide binding]; other site 537457005975 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 537457005976 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 537457005977 23S rRNA interface [nucleotide binding]; other site 537457005978 L7/L12 interface [polypeptide binding]; other site 537457005979 putative thiostrepton binding site; other site 537457005980 L25 interface [polypeptide binding]; other site 537457005981 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 537457005982 mRNA/rRNA interface [nucleotide binding]; other site 537457005983 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 537457005984 23S rRNA interface [nucleotide binding]; other site 537457005985 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 537457005986 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 537457005987 core dimer interface [polypeptide binding]; other site 537457005988 peripheral dimer interface [polypeptide binding]; other site 537457005989 L10 interface [polypeptide binding]; other site 537457005990 L11 interface [polypeptide binding]; other site 537457005991 putative EF-Tu interaction site [polypeptide binding]; other site 537457005992 putative EF-G interaction site [polypeptide binding]; other site 537457005993 HipA N-terminal domain; Region: Couple_hipA; pfam13657 537457005994 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 537457005995 HipA-like N-terminal domain; Region: HipA_N; pfam07805 537457005996 HipA-like C-terminal domain; Region: HipA_C; pfam07804 537457005997 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 537457005998 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 537457005999 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 537457006000 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 537457006001 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 537457006002 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 537457006003 RPB3 interaction site [polypeptide binding]; other site 537457006004 RPB1 interaction site [polypeptide binding]; other site 537457006005 RPB11 interaction site [polypeptide binding]; other site 537457006006 RPB10 interaction site [polypeptide binding]; other site 537457006007 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 537457006008 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 537457006009 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 537457006010 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 537457006011 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 537457006012 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 537457006013 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 537457006014 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 537457006015 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 537457006016 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 537457006017 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 537457006018 DNA binding site [nucleotide binding] 537457006019 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 537457006020 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 537457006021 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 537457006022 oligomeric interface; other site 537457006023 putative active site [active] 537457006024 homodimer interface [polypeptide binding]; other site 537457006025 Protein of unknown function, DUF417; Region: DUF417; cl01162 537457006026 Uncharacterized protein domain (DUF2202); Region: DUF2202; pfam09968 537457006027 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 537457006028 diiron binding motif [ion binding]; other site 537457006029 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 537457006030 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 537457006031 Walker A motif; other site 537457006032 ATP binding site [chemical binding]; other site 537457006033 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 537457006034 Walker B motif; other site 537457006035 arginine finger; other site 537457006036 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 537457006037 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 537457006038 active site 537457006039 HslU subunit interaction site [polypeptide binding]; other site 537457006040 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 537457006041 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 537457006042 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 537457006043 putative metal binding site [ion binding]; other site 537457006044 adenine DNA glycosylase; Provisional; Region: PRK10880 537457006045 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 537457006046 minor groove reading motif; other site 537457006047 helix-hairpin-helix signature motif; other site 537457006048 substrate binding pocket [chemical binding]; other site 537457006049 active site 537457006050 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 537457006051 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 537457006052 DNA binding and oxoG recognition site [nucleotide binding] 537457006053 oxidative damage protection protein; Provisional; Region: PRK05408 537457006054 murein transglycosylase C; Provisional; Region: mltC; PRK11671 537457006055 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 537457006056 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 537457006057 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 537457006058 N-acetyl-D-glucosamine binding site [chemical binding]; other site 537457006059 catalytic residue [active] 537457006060 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 537457006061 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 537457006062 P-loop; other site 537457006063 Magnesium ion binding site [ion binding]; other site 537457006064 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 537457006065 active site 537457006066 catalytic residues [active] 537457006067 DNA binding site [nucleotide binding] 537457006068 Int/Topo IB signature motif; other site 537457006069 Cupin-like domain; Region: Cupin_8; pfam13621 537457006070 Uncharacterized conserved protein [Function unknown]; Region: COG2850 537457006071 Transposase, Mutator family; Region: Transposase_mut; pfam00872 537457006072 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 537457006073 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 537457006074 putative active site [active] 537457006075 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 537457006076 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 537457006077 Walker A/P-loop; other site 537457006078 ATP binding site [chemical binding]; other site 537457006079 Q-loop/lid; other site 537457006080 ABC transporter signature motif; other site 537457006081 Walker B; other site 537457006082 D-loop; other site 537457006083 H-loop/switch region; other site 537457006084 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 537457006085 HlyD family secretion protein; Region: HlyD_3; pfam13437 537457006086 signal recognition particle protein; Provisional; Region: PRK10867 537457006087 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 537457006088 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 537457006089 P loop; other site 537457006090 GTP binding site [chemical binding]; other site 537457006091 Signal peptide binding domain; Region: SRP_SPB; pfam02978 537457006092 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 537457006093 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 537457006094 ATP binding site [chemical binding]; other site 537457006095 putative Mg++ binding site [ion binding]; other site 537457006096 Family description; Region: UvrD_C_2; pfam13538 537457006097 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 537457006098 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 537457006099 active site 537457006100 metal binding site [ion binding]; metal-binding site 537457006101 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 537457006102 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 537457006103 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 537457006104 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 537457006105 sequence-specific DNA binding site [nucleotide binding]; other site 537457006106 salt bridge; other site 537457006107 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 537457006108 Part of AAA domain; Region: AAA_19; pfam13245 537457006109 Family description; Region: UvrD_C_2; pfam13538 537457006110 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 537457006111 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 537457006112 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 537457006113 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 537457006114 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 537457006115 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 537457006116 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 537457006117 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 537457006118 putative substrate translocation pore; other site 537457006119 Major Facilitator Superfamily; Region: MFS_1; pfam07690 537457006120 tetracycline repressor protein TetR; Provisional; Region: PRK13756 537457006121 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 537457006122 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 537457006123 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 537457006124 dimerization interface [polypeptide binding]; other site 537457006125 putative DNA binding site [nucleotide binding]; other site 537457006126 putative Zn2+ binding site [ion binding]; other site 537457006127 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 537457006128 TniQ; Region: TniQ; pfam06527 537457006129 Bacterial TniB protein; Region: TniB; pfam05621 537457006130 AAA domain; Region: AAA_22; pfam13401 537457006131 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457006132 Winged helix-turn helix; Region: HTH_29; pfam13551 537457006133 Integrase core domain; Region: rve; pfam00665 537457006134 Integrase core domain; Region: rve_3; cl15866 537457006135 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 537457006136 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 537457006137 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 537457006138 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 537457006139 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 537457006140 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 537457006141 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 537457006142 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 537457006143 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 537457006144 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 537457006145 Putative serine esterase (DUF676); Region: DUF676; pfam05057 537457006146 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 537457006147 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 537457006148 dimer interface [polypeptide binding]; other site 537457006149 tetramer interface [polypeptide binding]; other site 537457006150 PYR/PP interface [polypeptide binding]; other site 537457006151 TPP binding site [chemical binding]; other site 537457006152 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 537457006153 TPP-binding site; other site 537457006154 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 537457006155 active site 537457006156 catalytic triad [active] 537457006157 oxyanion hole [active] 537457006158 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 537457006159 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 537457006160 putative active site cavity [active] 537457006161 N-acetylmannosamine kinase; Provisional; Region: PRK05082 537457006162 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 537457006163 nucleotide binding site [chemical binding]; other site 537457006164 N-acetylneuraminate lyase; Provisional; Region: PRK04147 537457006165 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 537457006166 inhibitor site; inhibition site 537457006167 active site 537457006168 dimer interface [polypeptide binding]; other site 537457006169 catalytic residue [active] 537457006170 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 537457006171 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 537457006172 active site 537457006173 trimer interface [polypeptide binding]; other site 537457006174 allosteric site; other site 537457006175 active site lid [active] 537457006176 hexamer (dimer of trimers) interface [polypeptide binding]; other site 537457006177 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 537457006178 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 537457006179 active site 537457006180 dimer interface [polypeptide binding]; other site 537457006181 fumarate hydratase; Reviewed; Region: fumC; PRK00485 537457006182 Class II fumarases; Region: Fumarase_classII; cd01362 537457006183 active site 537457006184 tetramer interface [polypeptide binding]; other site 537457006185 TfoX N-terminal domain; Region: TfoX_N; pfam04993 537457006186 TfoX C-terminal domain; Region: TfoX_C; pfam04994 537457006187 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 537457006188 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 537457006189 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 537457006190 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 537457006191 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 537457006192 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 537457006193 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 537457006194 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 537457006195 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 537457006196 protein-rRNA interface [nucleotide binding]; other site 537457006197 putative translocon binding site; other site 537457006198 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 537457006199 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 537457006200 G-X-X-G motif; other site 537457006201 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 537457006202 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 537457006203 23S rRNA interface [nucleotide binding]; other site 537457006204 5S rRNA interface [nucleotide binding]; other site 537457006205 putative antibiotic binding site [chemical binding]; other site 537457006206 L25 interface [polypeptide binding]; other site 537457006207 L27 interface [polypeptide binding]; other site 537457006208 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 537457006209 23S rRNA interface [nucleotide binding]; other site 537457006210 putative translocon interaction site; other site 537457006211 signal recognition particle (SRP54) interaction site; other site 537457006212 L23 interface [polypeptide binding]; other site 537457006213 trigger factor interaction site; other site 537457006214 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 537457006215 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 537457006216 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 537457006217 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 537457006218 RNA binding site [nucleotide binding]; other site 537457006219 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 537457006220 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 537457006221 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 537457006222 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 537457006223 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 537457006224 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 537457006225 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 537457006226 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 537457006227 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 537457006228 23S rRNA interface [nucleotide binding]; other site 537457006229 L21e interface [polypeptide binding]; other site 537457006230 5S rRNA interface [nucleotide binding]; other site 537457006231 L27 interface [polypeptide binding]; other site 537457006232 L5 interface [polypeptide binding]; other site 537457006233 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 537457006234 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 537457006235 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 537457006236 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 537457006237 23S rRNA binding site [nucleotide binding]; other site 537457006238 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 537457006239 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 537457006240 SecY translocase; Region: SecY; pfam00344 537457006241 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 537457006242 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 537457006243 30S ribosomal protein S13; Region: bact_S13; TIGR03631 537457006244 30S ribosomal protein S11; Validated; Region: PRK05309 537457006245 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 537457006246 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 537457006247 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 537457006248 RNA binding surface [nucleotide binding]; other site 537457006249 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 537457006250 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 537457006251 alphaNTD homodimer interface [polypeptide binding]; other site 537457006252 alphaNTD - beta interaction site [polypeptide binding]; other site 537457006253 alphaNTD - beta' interaction site [polypeptide binding]; other site 537457006254 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 537457006255 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 537457006256 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 537457006257 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 537457006258 RimM N-terminal domain; Region: RimM; pfam01782 537457006259 PRC-barrel domain; Region: PRC; pfam05239 537457006260 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 537457006261 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 537457006262 Cupin superfamily protein; Region: Cupin_4; pfam08007 537457006263 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 537457006264 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 537457006265 intersubunit interface [polypeptide binding]; other site 537457006266 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 537457006267 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 537457006268 ABC-ATPase subunit interface; other site 537457006269 dimer interface [polypeptide binding]; other site 537457006270 putative PBP binding regions; other site 537457006271 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 537457006272 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 537457006273 Walker A/P-loop; other site 537457006274 ATP binding site [chemical binding]; other site 537457006275 Q-loop/lid; other site 537457006276 ABC transporter signature motif; other site 537457006277 Walker B; other site 537457006278 D-loop; other site 537457006279 H-loop/switch region; other site 537457006280 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 537457006281 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 537457006282 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 537457006283 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 537457006284 intersubunit interface [polypeptide binding]; other site 537457006285 ATP-grasp domain; Region: ATP-grasp_4; cl17255 537457006286 chaperone protein TorD; Validated; Region: torD; PRK04976 537457006287 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 537457006288 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 537457006289 molybdopterin cofactor binding site [chemical binding]; other site 537457006290 substrate binding site [chemical binding]; other site 537457006291 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 537457006292 molybdopterin cofactor binding site; other site 537457006293 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 537457006294 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 537457006295 dimer interface [polypeptide binding]; other site 537457006296 motif 1; other site 537457006297 active site 537457006298 motif 2; other site 537457006299 motif 3; other site 537457006300 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 537457006301 putative active site [active] 537457006302 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 537457006303 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 537457006304 DALR anticodon binding domain; Region: DALR_1; pfam05746 537457006305 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 537457006306 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 537457006307 S-adenosylmethionine binding site [chemical binding]; other site 537457006308 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 537457006309 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 537457006310 active site 537457006311 Int/Topo IB signature motif; other site 537457006312 Protein of unknown function (DUF454); Region: DUF454; cl01063 537457006313 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 537457006314 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 537457006315 active site 537457006316 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 537457006317 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 537457006318 putative active site [active] 537457006319 putative metal binding site [ion binding]; other site 537457006320 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 537457006321 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 537457006322 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 537457006323 active site 537457006324 MULE transposase domain; Region: MULE; pfam10551 537457006325 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 537457006326 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 537457006327 Walker A/P-loop; other site 537457006328 ATP binding site [chemical binding]; other site 537457006329 Q-loop/lid; other site 537457006330 ABC transporter signature motif; other site 537457006331 Walker B; other site 537457006332 D-loop; other site 537457006333 H-loop/switch region; other site 537457006334 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 537457006335 FtsX-like permease family; Region: FtsX; pfam02687 537457006336 macrolide transporter subunit MacA; Provisional; Region: PRK11578 537457006337 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 537457006338 HlyD family secretion protein; Region: HlyD_3; pfam13437 537457006339 MltA-interacting protein MipA; Region: MipA; cl01504 537457006340 DNA polymerase III subunit delta'; Validated; Region: PRK06871 537457006341 DNA polymerase III subunit delta'; Validated; Region: PRK08485 537457006342 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 537457006343 thymidylate kinase; Validated; Region: tmk; PRK00698 537457006344 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 537457006345 TMP-binding site; other site 537457006346 ATP-binding site [chemical binding]; other site 537457006347 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 537457006348 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 537457006349 dimerization interface [polypeptide binding]; other site 537457006350 acyl carrier protein; Provisional; Region: acpP; PRK00982 537457006351 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 537457006352 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 537457006353 substrate binding site [chemical binding]; other site 537457006354 hexamer interface [polypeptide binding]; other site 537457006355 metal binding site [ion binding]; metal-binding site 537457006356 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 537457006357 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 537457006358 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 537457006359 Transglycosylase; Region: Transgly; pfam00912 537457006360 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 537457006361 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 537457006362 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 537457006363 substrate binding site [chemical binding]; other site 537457006364 oxyanion hole (OAH) forming residues; other site 537457006365 trimer interface [polypeptide binding]; other site 537457006366 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 537457006367 Zn2+ binding site [ion binding]; other site 537457006368 Mg2+ binding site [ion binding]; other site 537457006369 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 537457006370 synthetase active site [active] 537457006371 NTP binding site [chemical binding]; other site 537457006372 metal binding site [ion binding]; metal-binding site 537457006373 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 537457006374 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 537457006375 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 537457006376 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 537457006377 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 537457006378 Pathogenicity locus; Region: Cdd1; pfam11731 537457006379 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 537457006380 generic binding surface II; other site 537457006381 ssDNA binding site; other site 537457006382 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 537457006383 ATP binding site [chemical binding]; other site 537457006384 putative Mg++ binding site [ion binding]; other site 537457006385 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 537457006386 nucleotide binding region [chemical binding]; other site 537457006387 ATP-binding site [chemical binding]; other site 537457006388 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 537457006389 oligomeric interface; other site 537457006390 putative active site [active] 537457006391 homodimer interface [polypeptide binding]; other site 537457006392 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 537457006393 prolyl-tRNA synthetase; Provisional; Region: PRK09194 537457006394 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 537457006395 dimer interface [polypeptide binding]; other site 537457006396 motif 1; other site 537457006397 active site 537457006398 motif 2; other site 537457006399 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 537457006400 putative deacylase active site [active] 537457006401 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 537457006402 active site 537457006403 motif 3; other site 537457006404 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 537457006405 anticodon binding site; other site 537457006406 Putative zinc-finger; Region: zf-HC2; pfam13490 537457006407 RNA polymerase sigma factor; Provisional; Region: PRK12530 537457006408 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 537457006409 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 537457006410 DNA binding residues [nucleotide binding] 537457006411 TMAO/DMSO reductase; Reviewed; Region: PRK05363 537457006412 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 537457006413 Moco binding site; other site 537457006414 metal coordination site [ion binding]; other site 537457006415 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 537457006416 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 537457006417 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 537457006418 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 537457006419 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 537457006420 DNA binding residues [nucleotide binding] 537457006421 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 537457006422 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 537457006423 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 537457006424 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 537457006425 dimer interface [polypeptide binding]; other site 537457006426 active site 537457006427 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 537457006428 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 537457006429 putative DNA binding site [nucleotide binding]; other site 537457006430 putative Zn2+ binding site [ion binding]; other site 537457006431 AsnC family; Region: AsnC_trans_reg; pfam01037 537457006432 uridine phosphorylase; Provisional; Region: PRK11178 537457006433 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 537457006434 Chorismate lyase; Region: Chor_lyase; cl01230 537457006435 glutamate racemase; Provisional; Region: PRK00865 537457006436 sulfite reductase subunit beta; Provisional; Region: PRK13504 537457006437 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 537457006438 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 537457006439 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 537457006440 Flavodoxin; Region: Flavodoxin_1; pfam00258 537457006441 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 537457006442 FAD binding pocket [chemical binding]; other site 537457006443 FAD binding motif [chemical binding]; other site 537457006444 catalytic residues [active] 537457006445 NAD binding pocket [chemical binding]; other site 537457006446 phosphate binding motif [ion binding]; other site 537457006447 beta-alpha-beta structure motif; other site 537457006448 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 537457006449 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 537457006450 CysD dimerization site [polypeptide binding]; other site 537457006451 G1 box; other site 537457006452 putative GEF interaction site [polypeptide binding]; other site 537457006453 GTP/Mg2+ binding site [chemical binding]; other site 537457006454 Switch I region; other site 537457006455 G2 box; other site 537457006456 G3 box; other site 537457006457 Switch II region; other site 537457006458 G4 box; other site 537457006459 G5 box; other site 537457006460 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 537457006461 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 537457006462 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 537457006463 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 537457006464 Active Sites [active] 537457006465 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 537457006466 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 537457006467 Active Sites [active] 537457006468 siroheme synthase; Provisional; Region: cysG; PRK10637 537457006469 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 537457006470 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 537457006471 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 537457006472 active site 537457006473 SAM binding site [chemical binding]; other site 537457006474 homodimer interface [polypeptide binding]; other site 537457006475 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 537457006476 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 537457006477 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 537457006478 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 537457006479 dimer interface [polypeptide binding]; other site 537457006480 conserved gate region; other site 537457006481 putative PBP binding loops; other site 537457006482 ABC-ATPase subunit interface; other site 537457006483 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 537457006484 dimer interface [polypeptide binding]; other site 537457006485 conserved gate region; other site 537457006486 putative PBP binding loops; other site 537457006487 ABC-ATPase subunit interface; other site 537457006488 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 537457006489 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 537457006490 Walker A/P-loop; other site 537457006491 ATP binding site [chemical binding]; other site 537457006492 Q-loop/lid; other site 537457006493 ABC transporter signature motif; other site 537457006494 Walker B; other site 537457006495 D-loop; other site 537457006496 H-loop/switch region; other site 537457006497 TOBE-like domain; Region: TOBE_3; pfam12857 537457006498 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 537457006499 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 537457006500 phosphate binding site [ion binding]; other site 537457006501 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 537457006502 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 537457006503 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 537457006504 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 537457006505 FAD binding domain; Region: FAD_binding_4; pfam01565 537457006506 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 537457006507 outer membrane protein A; Reviewed; Region: PRK10808 537457006508 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 537457006509 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 537457006510 ligand binding site [chemical binding]; other site 537457006511 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 537457006512 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 537457006513 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 537457006514 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 537457006515 Paraquat-inducible protein A; Region: PqiA; pfam04403 537457006516 Paraquat-inducible protein A; Region: PqiA; pfam04403 537457006517 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 537457006518 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 537457006519 MerT mercuric transport protein; Region: MerT; cl03578 537457006520 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 537457006521 metal-binding site [ion binding] 537457006522 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 537457006523 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 537457006524 dimer interface [polypeptide binding]; other site 537457006525 active site 537457006526 metal binding site [ion binding]; metal-binding site 537457006527 Transcriptional regulator [Transcription]; Region: LysR; COG0583 537457006528 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 537457006529 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 537457006530 dimerization interface [polypeptide binding]; other site 537457006531 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 537457006532 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 537457006533 trimer interface [polypeptide binding]; other site 537457006534 active site 537457006535 substrate binding site [chemical binding]; other site 537457006536 CoA binding site [chemical binding]; other site 537457006537 Dehydroquinase class II; Region: DHquinase_II; pfam01220 537457006538 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 537457006539 active site 537457006540 trimer interface [polypeptide binding]; other site 537457006541 dimer interface [polypeptide binding]; other site 537457006542 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 537457006543 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 537457006544 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 537457006545 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 537457006546 carboxyltransferase (CT) interaction site; other site 537457006547 biotinylation site [posttranslational modification]; other site 537457006548 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 537457006549 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 537457006550 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 537457006551 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 537457006552 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 537457006553 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 537457006554 GTP binding site; other site 537457006555 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 537457006556 Walker A motif; other site 537457006557 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 537457006558 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 537457006559 catalytic residues [active] 537457006560 hinge region; other site 537457006561 alpha helical domain; other site 537457006562 Sporulation related domain; Region: SPOR; pfam05036 537457006563 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 537457006564 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 537457006565 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 537457006566 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 537457006567 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 537457006568 metal binding site [ion binding]; metal-binding site 537457006569 dimer interface [polypeptide binding]; other site 537457006570 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 537457006571 ArsC family; Region: ArsC; pfam03960 537457006572 putative catalytic residues [active] 537457006573 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 537457006574 dihydropteroate synthase; Region: DHPS; TIGR01496 537457006575 substrate binding pocket [chemical binding]; other site 537457006576 dimer interface [polypeptide binding]; other site 537457006577 inhibitor binding site; inhibition site 537457006578 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 537457006579 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 537457006580 RNA binding surface [nucleotide binding]; other site 537457006581 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 537457006582 active site 537457006583 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 537457006584 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 537457006585 Conserved TM helix; Region: TM_helix; pfam05552 537457006586 mechanosensitive channel MscS; Provisional; Region: PRK10334 537457006587 Mechanosensitive ion channel; Region: MS_channel; pfam00924 537457006588 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 537457006589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 537457006590 Putative esterase; Region: Esterase; pfam00756 537457006591 protease3; Provisional; Region: PRK15101 537457006592 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 537457006593 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 537457006594 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 537457006595 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 537457006596 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 537457006597 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 537457006598 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 537457006599 active site 1 [active] 537457006600 dimer interface [polypeptide binding]; other site 537457006601 active site 2 [active] 537457006602 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 537457006603 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 537457006604 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 537457006605 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 537457006606 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 537457006607 active site 537457006608 HIGH motif; other site 537457006609 dimer interface [polypeptide binding]; other site 537457006610 KMSKS motif; other site 537457006611 phosphoglycolate phosphatase; Provisional; Region: PRK13222 537457006612 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 537457006613 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 537457006614 motif II; other site 537457006615 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 537457006616 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 537457006617 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 537457006618 putative active site [active] 537457006619 Ap4A binding site [chemical binding]; other site 537457006620 nudix motif; other site 537457006621 putative metal binding site [ion binding]; other site 537457006622 Peptidase family M48; Region: Peptidase_M48; pfam01435 537457006623 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 537457006624 dimer interface [polypeptide binding]; other site 537457006625 substrate binding site [chemical binding]; other site 537457006626 metal binding sites [ion binding]; metal-binding site 537457006627 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 537457006628 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 537457006629 S-adenosylmethionine binding site [chemical binding]; other site 537457006630 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 537457006631 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 537457006632 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 537457006633 Integrase core domain; Region: rve; pfam00665 537457006634 Integrase core domain; Region: rve_2; pfam13333 537457006635 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 537457006636 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457006637 Helix-turn-helix domain; Region: HTH_28; pfam13518 537457006638 Transposase, Mutator family; Region: Transposase_mut; pfam00872 537457006639 chaperone protein DnaJ; Provisional; Region: PRK10767 537457006640 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 537457006641 HSP70 interaction site [polypeptide binding]; other site 537457006642 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 537457006643 substrate binding site [polypeptide binding]; other site 537457006644 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 537457006645 Zn binding sites [ion binding]; other site 537457006646 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 537457006647 dimer interface [polypeptide binding]; other site 537457006648 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 537457006649 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 537457006650 nucleotide binding site [chemical binding]; other site 537457006651 xylulokinase; Provisional; Region: PRK15027 537457006652 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 537457006653 N- and C-terminal domain interface [polypeptide binding]; other site 537457006654 active site 537457006655 MgATP binding site [chemical binding]; other site 537457006656 catalytic site [active] 537457006657 metal binding site [ion binding]; metal-binding site 537457006658 xylulose binding site [chemical binding]; other site 537457006659 homodimer interface [polypeptide binding]; other site 537457006660 xylose isomerase; Provisional; Region: PRK05474 537457006661 xylose isomerase; Region: xylose_isom_A; TIGR02630 537457006662 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 537457006663 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 537457006664 putative ligand binding site [chemical binding]; other site 537457006665 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 537457006666 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 537457006667 Walker A/P-loop; other site 537457006668 ATP binding site [chemical binding]; other site 537457006669 Q-loop/lid; other site 537457006670 ABC transporter signature motif; other site 537457006671 Walker B; other site 537457006672 D-loop; other site 537457006673 H-loop/switch region; other site 537457006674 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 537457006675 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 537457006676 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 537457006677 TM-ABC transporter signature motif; other site 537457006678 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 537457006679 putative dimerization interface [polypeptide binding]; other site 537457006680 Transcriptional regulators [Transcription]; Region: PurR; COG1609 537457006681 putative ligand binding site [chemical binding]; other site 537457006682 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 537457006683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 537457006684 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 537457006685 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 537457006686 active site 537457006687 Zn binding site [ion binding]; other site 537457006688 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 537457006689 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 537457006690 Na binding site [ion binding]; other site 537457006691 Protein of unknown function (DUF997); Region: DUF997; pfam06196 537457006692 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 537457006693 dimerization interface [polypeptide binding]; other site 537457006694 DNA binding site [nucleotide binding] 537457006695 corepressor binding sites; other site 537457006696 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 537457006697 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 537457006698 active site 537457006699 phosphate binding residues; other site 537457006700 catalytic residues [active] 537457006701 Site-specific recombinase; Region: SpecificRecomb; cl15411 537457006702 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 537457006703 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 537457006704 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 537457006705 putative active site [active] 537457006706 putative metal binding site [ion binding]; other site 537457006707 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 537457006708 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 537457006709 DXD motif; other site 537457006710 PgaD-like protein; Region: PgaD; cl14676 537457006711 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 537457006712 triosephosphate isomerase; Provisional; Region: PRK14567 537457006713 substrate binding site [chemical binding]; other site 537457006714 dimer interface [polypeptide binding]; other site 537457006715 catalytic triad [active] 537457006716 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 537457006717 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 537457006718 Permutation of conserved domain; other site 537457006719 active site 537457006720 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 537457006721 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 537457006722 Predicted membrane protein [Function unknown]; Region: COG1238 537457006723 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 537457006724 Flagellar L-ring protein; Region: FlgH; cl00905 537457006725 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 537457006726 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 537457006727 Peptidase family M23; Region: Peptidase_M23; pfam01551 537457006728 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 537457006729 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 537457006730 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 537457006731 metal binding site [ion binding]; metal-binding site 537457006732 dimer interface [polypeptide binding]; other site 537457006733 hypothetical protein; Provisional; Region: PRK10519 537457006734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 537457006735 Nucleoside recognition; Region: Gate; pfam07670 537457006736 ferrochelatase; Reviewed; Region: hemH; PRK00035 537457006737 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 537457006738 C-terminal domain interface [polypeptide binding]; other site 537457006739 active site 537457006740 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 537457006741 active site 537457006742 N-terminal domain interface [polypeptide binding]; other site 537457006743 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 537457006744 ribonuclease P; Reviewed; Region: rnpA; PRK01732 537457006745 hypothetical protein; Validated; Region: PRK00041 537457006746 glutamine synthetase; Provisional; Region: glnA; PRK09469 537457006747 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 537457006748 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 537457006749 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 537457006750 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 537457006751 active site 537457006752 metal binding site [ion binding]; metal-binding site 537457006753 hexamer interface [polypeptide binding]; other site 537457006754 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 537457006755 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 537457006756 dimer interface [polypeptide binding]; other site 537457006757 active site 537457006758 ADP-ribose binding site [chemical binding]; other site 537457006759 nudix motif; other site 537457006760 metal binding site [ion binding]; metal-binding site 537457006761 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 537457006762 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 537457006763 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 537457006764 Predicted membrane protein [Function unknown]; Region: COG2510 537457006765 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 537457006766 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 537457006767 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 537457006768 putative sugar binding sites [chemical binding]; other site 537457006769 Q-X-W motif; other site 537457006770 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 537457006771 putative active site [active] 537457006772 dimerization interface [polypeptide binding]; other site 537457006773 putative tRNAtyr binding site [nucleotide binding]; other site 537457006774 hypothetical protein; Reviewed; Region: PRK01637 537457006775 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 537457006776 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 537457006777 putative catalytic cysteine [active] 537457006778 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 537457006779 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 537457006780 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 537457006781 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 537457006782 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 537457006783 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 537457006784 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 537457006785 ATP binding site [chemical binding]; other site 537457006786 Mg2+ binding site [ion binding]; other site 537457006787 G-X-G motif; other site 537457006788 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 537457006789 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 537457006790 ATP binding site [chemical binding]; other site 537457006791 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 537457006792 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 537457006793 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 537457006794 NAD binding site [chemical binding]; other site 537457006795 substrate binding site [chemical binding]; other site 537457006796 catalytic Zn binding site [ion binding]; other site 537457006797 tetramer interface [polypeptide binding]; other site 537457006798 structural Zn binding site [ion binding]; other site 537457006799 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 537457006800 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 537457006801 bacterial Hfq-like; Region: Hfq; cd01716 537457006802 hexamer interface [polypeptide binding]; other site 537457006803 Sm1 motif; other site 537457006804 RNA binding site [nucleotide binding]; other site 537457006805 Sm2 motif; other site 537457006806 GTPase HflX; Provisional; Region: PRK11058 537457006807 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 537457006808 HflX GTPase family; Region: HflX; cd01878 537457006809 G1 box; other site 537457006810 GTP/Mg2+ binding site [chemical binding]; other site 537457006811 Switch I region; other site 537457006812 G2 box; other site 537457006813 G3 box; other site 537457006814 Switch II region; other site 537457006815 G4 box; other site 537457006816 G5 box; other site 537457006817 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 537457006818 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 537457006819 metal binding site [ion binding]; metal-binding site 537457006820 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 537457006821 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 537457006822 ligand binding site [chemical binding]; other site 537457006823 flexible hinge region; other site 537457006824 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 537457006825 putative switch regulator; other site 537457006826 non-specific DNA interactions [nucleotide binding]; other site 537457006827 DNA binding site [nucleotide binding] 537457006828 sequence specific DNA binding site [nucleotide binding]; other site 537457006829 putative cAMP binding site [chemical binding]; other site 537457006830 hypothetical protein; Provisional; Region: PRK04966 537457006831 division inhibitor protein; Provisional; Region: slmA; PRK09480 537457006832 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 537457006833 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 537457006834 trimer interface [polypeptide binding]; other site 537457006835 active site 537457006836 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 537457006837 Flavoprotein; Region: Flavoprotein; pfam02441 537457006838 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 537457006839 hypothetical protein; Reviewed; Region: PRK00024 537457006840 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 537457006841 MPN+ (JAMM) motif; other site 537457006842 Zinc-binding site [ion binding]; other site 537457006843 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 537457006844 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 537457006845 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 537457006846 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 537457006847 inhibitor-cofactor binding pocket; inhibition site 537457006848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457006849 catalytic residue [active] 537457006850 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 537457006851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457006852 catalytic residue [active] 537457006853 hypothetical protein; Provisional; Region: PRK11018 537457006854 CPxP motif; other site 537457006855 putative inner membrane protein; Provisional; Region: PRK11099 537457006856 hypothetical protein; Provisional; Region: PRK11027 537457006857 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 537457006858 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 537457006859 S-adenosylmethionine binding site [chemical binding]; other site 537457006860 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 537457006861 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 537457006862 Cl binding site [ion binding]; other site 537457006863 oligomer interface [polypeptide binding]; other site 537457006864 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 537457006865 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 537457006866 S-adenosylmethionine binding site [chemical binding]; other site 537457006867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 537457006868 SCP-2 sterol transfer family; Region: SCP2; pfam02036 537457006869 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 537457006870 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 537457006871 twin arginine translocase protein A; Provisional; Region: tatA; PRK01833 537457006872 sec-independent translocase; Provisional; Region: PRK01770 537457006873 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 537457006874 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 537457006875 dimer interface [polypeptide binding]; other site 537457006876 allosteric magnesium binding site [ion binding]; other site 537457006877 active site 537457006878 aspartate-rich active site metal binding site; other site 537457006879 Schiff base residues; other site 537457006880 Predicted membrane protein [Function unknown]; Region: COG3671 537457006881 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 537457006882 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 537457006883 DNA binding site [nucleotide binding] 537457006884 catalytic residue [active] 537457006885 H2TH interface [polypeptide binding]; other site 537457006886 putative catalytic residues [active] 537457006887 turnover-facilitating residue; other site 537457006888 intercalation triad [nucleotide binding]; other site 537457006889 8OG recognition residue [nucleotide binding]; other site 537457006890 putative reading head residues; other site 537457006891 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 537457006892 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 537457006893 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 537457006894 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 537457006895 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 537457006896 NAD(P) binding site [chemical binding]; other site 537457006897 homotetramer interface [polypeptide binding]; other site 537457006898 homodimer interface [polypeptide binding]; other site 537457006899 active site 537457006900 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 537457006901 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 537457006902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 537457006903 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 537457006904 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 537457006905 substrate binding pocket [chemical binding]; other site 537457006906 chain length determination region; other site 537457006907 substrate-Mg2+ binding site; other site 537457006908 catalytic residues [active] 537457006909 aspartate-rich region 1; other site 537457006910 active site lid residues [active] 537457006911 aspartate-rich region 2; other site 537457006912 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 537457006913 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 537457006914 active site 537457006915 nucleophile elbow; other site 537457006916 Predicted flavoprotein [General function prediction only]; Region: COG0431 537457006917 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 537457006918 Predicted membrane protein [Function unknown]; Region: COG2259 537457006919 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 537457006920 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 537457006921 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 537457006922 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 537457006923 EamA-like transporter family; Region: EamA; pfam00892 537457006924 EamA-like transporter family; Region: EamA; pfam00892 537457006925 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 537457006926 binding surface 537457006927 Tetratricopeptide repeat; Region: TPR_16; pfam13432 537457006928 TPR motif; other site 537457006929 Protein of unknown function (DUF560); Region: DUF560; pfam04575 537457006930 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 537457006931 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 537457006932 active site 537457006933 motif I; other site 537457006934 motif II; other site 537457006935 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 537457006936 DNA utilization protein GntX; Provisional; Region: PRK11595 537457006937 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 537457006938 active site 537457006939 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 537457006940 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 537457006941 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 537457006942 S-adenosylmethionine binding site [chemical binding]; other site 537457006943 DNA polymerase III subunit psi; Validated; Region: PRK06856 537457006944 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 537457006945 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 537457006946 Coenzyme A binding pocket [chemical binding]; other site 537457006947 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 537457006948 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 537457006949 ATP binding site [chemical binding]; other site 537457006950 Mg++ binding site [ion binding]; other site 537457006951 motif III; other site 537457006952 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 537457006953 nucleotide binding region [chemical binding]; other site 537457006954 ATP-binding site [chemical binding]; other site 537457006955 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 537457006956 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 537457006957 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 537457006958 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 537457006959 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 537457006960 peptide binding site [polypeptide binding]; other site 537457006961 Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like; Region: ALDH_StaphAldA1; cd07117 537457006962 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 537457006963 NAD(P) binding site [chemical binding]; other site 537457006964 catalytic residues [active] 537457006965 Predicted membrane protein [Function unknown]; Region: COG1584 537457006966 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 537457006967 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 537457006968 Walker A/P-loop; other site 537457006969 ATP binding site [chemical binding]; other site 537457006970 Q-loop/lid; other site 537457006971 ABC transporter signature motif; other site 537457006972 Walker B; other site 537457006973 D-loop; other site 537457006974 H-loop/switch region; other site 537457006975 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 537457006976 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 537457006977 siderophore binding site; other site 537457006978 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 537457006979 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 537457006980 ABC-ATPase subunit interface; other site 537457006981 dimer interface [polypeptide binding]; other site 537457006982 putative PBP binding regions; other site 537457006983 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 537457006984 ABC-ATPase subunit interface; other site 537457006985 dimer interface [polypeptide binding]; other site 537457006986 putative PBP binding regions; other site 537457006987 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 537457006988 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 537457006989 N-terminal plug; other site 537457006990 ligand-binding site [chemical binding]; other site 537457006991 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 537457006992 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 537457006993 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 537457006994 ATP binding site [chemical binding]; other site 537457006995 active site 537457006996 substrate binding site [chemical binding]; other site 537457006997 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 537457006998 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 537457006999 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 537457007000 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 537457007001 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 537457007002 NAD binding site [chemical binding]; other site 537457007003 dimerization interface [polypeptide binding]; other site 537457007004 product binding site; other site 537457007005 substrate binding site [chemical binding]; other site 537457007006 zinc binding site [ion binding]; other site 537457007007 catalytic residues [active] 537457007008 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 537457007009 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 537457007010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 537457007011 homodimer interface [polypeptide binding]; other site 537457007012 catalytic residue [active] 537457007013 Transposase IS200 like; Region: Y1_Tnp; pfam01797 537457007014 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 537457007015 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 537457007016 active site 537457007017 motif I; other site 537457007018 motif II; other site 537457007019 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 537457007020 putative active site pocket [active] 537457007021 4-fold oligomerization interface [polypeptide binding]; other site 537457007022 metal binding residues [ion binding]; metal-binding site 537457007023 3-fold/trimer interface [polypeptide binding]; other site 537457007024 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 537457007025 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 537457007026 putative active site [active] 537457007027 oxyanion strand; other site 537457007028 catalytic triad [active] 537457007029 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 537457007030 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 537457007031 catalytic residues [active] 537457007032 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 537457007033 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 537457007034 substrate binding site [chemical binding]; other site 537457007035 glutamase interaction surface [polypeptide binding]; other site 537457007036 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 537457007037 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 537457007038 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 537457007039 metal binding site [ion binding]; metal-binding site 537457007040 hypothetical protein; Provisional; Region: PRK11212 537457007041 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 537457007042 active site 537457007043 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 537457007044 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 537457007045 DNA binding site [nucleotide binding] 537457007046 domain linker motif; other site 537457007047 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 537457007048 dimerization interface [polypeptide binding]; other site 537457007049 ligand binding site [chemical binding]; other site 537457007050 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 537457007051 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 537457007052 substrate binding [chemical binding]; other site 537457007053 active site 537457007054 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 537457007055 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 537457007056 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 537457007057 putative substrate binding site [chemical binding]; other site 537457007058 putative ATP binding site [chemical binding]; other site 537457007059 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 537457007060 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 537457007061 Multicopper oxidase; Region: Cu-oxidase; pfam00394 537457007062 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 537457007063 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 537457007064 FtsX-like permease family; Region: FtsX; pfam02687 537457007065 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 537457007066 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 537457007067 Walker A/P-loop; other site 537457007068 ATP binding site [chemical binding]; other site 537457007069 Q-loop/lid; other site 537457007070 ABC transporter signature motif; other site 537457007071 Walker B; other site 537457007072 D-loop; other site 537457007073 H-loop/switch region; other site 537457007074 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 537457007075 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 537457007076 FtsX-like permease family; Region: FtsX; pfam02687 537457007077 glycerate dehydrogenase; Provisional; Region: PRK06932 537457007078 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 537457007079 putative ligand binding site [chemical binding]; other site 537457007080 putative NAD binding site [chemical binding]; other site 537457007081 catalytic site [active] 537457007082 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 537457007083 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 537457007084 Uncharacterized conserved protein [Function unknown]; Region: COG2912 537457007085 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 537457007086 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 537457007087 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 537457007088 peptide chain release factor 1; Validated; Region: prfA; PRK00591 537457007089 This domain is found in peptide chain release factors; Region: PCRF; smart00937 537457007090 RF-1 domain; Region: RF-1; pfam00472 537457007091 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 537457007092 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 537457007093 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 537457007094 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 537457007095 dihydropteroate synthase; Region: DHPS; TIGR01496 537457007096 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 537457007097 substrate binding pocket [chemical binding]; other site 537457007098 dimer interface [polypeptide binding]; other site 537457007099 inhibitor binding site; inhibition site 537457007100 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 537457007101 Phosphotransferase enzyme family; Region: APH; pfam01636 537457007102 active site 537457007103 ATP binding site [chemical binding]; other site 537457007104 antibiotic binding site [chemical binding]; other site 537457007105 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 537457007106 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 537457007107 Helix-turn-helix domain; Region: HTH_38; pfam13936 537457007108 Integrase core domain; Region: rve; pfam00665 537457007109 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 537457007110 MbeB-like, N-term conserved region; Region: MbeB_N; pfam04837