-- dump date 20140618_191040 -- class Genbank::misc_feature -- table misc_feature_note -- id note 434271000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 434271000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 434271000003 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 434271000004 Walker B motif; other site 434271000005 arginine finger; other site 434271000006 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 434271000007 DnaA box-binding interface [nucleotide binding]; other site 434271000008 DNA polymerase III subunit beta; Validated; Region: PRK05643 434271000009 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 434271000010 putative DNA binding surface [nucleotide binding]; other site 434271000011 dimer interface [polypeptide binding]; other site 434271000012 beta-clamp/clamp loader binding surface; other site 434271000013 beta-clamp/translesion DNA polymerase binding surface; other site 434271000014 recF protein; Region: recf; TIGR00611 434271000015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271000016 Walker A/P-loop; other site 434271000017 ATP binding site [chemical binding]; other site 434271000018 Q-loop/lid; other site 434271000019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271000020 ABC transporter signature motif; other site 434271000021 Walker B; other site 434271000022 D-loop; other site 434271000023 H-loop/switch region; other site 434271000024 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 434271000025 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 434271000026 E-class dimer interface [polypeptide binding]; other site 434271000027 P-class dimer interface [polypeptide binding]; other site 434271000028 active site 434271000029 Cu2+ binding site [ion binding]; other site 434271000030 Zn2+ binding site [ion binding]; other site 434271000031 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 434271000032 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 434271000033 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 434271000034 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 434271000035 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 434271000036 eyelet of channel; other site 434271000037 trimer interface [polypeptide binding]; other site 434271000038 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 434271000039 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 434271000040 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 434271000041 putative inner membrane peptidase; Provisional; Region: PRK11778 434271000042 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 434271000043 oligomer interface [polypeptide binding]; other site 434271000044 tandem repeat interface [polypeptide binding]; other site 434271000045 active site residues [active] 434271000046 cell division protein MraZ; Reviewed; Region: PRK00326 434271000047 MraZ protein; Region: MraZ; pfam02381 434271000048 MraZ protein; Region: MraZ; pfam02381 434271000049 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 434271000050 MraW methylase family; Region: Methyltransf_5; pfam01795 434271000051 Cell division protein FtsL; Region: FtsL; pfam04999 434271000052 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 434271000053 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 434271000054 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 434271000055 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 434271000056 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 434271000057 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 434271000058 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434271000059 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434271000060 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 434271000061 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 434271000062 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 434271000063 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434271000064 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434271000065 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 434271000066 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 434271000067 Mg++ binding site [ion binding]; other site 434271000068 putative catalytic motif [active] 434271000069 putative substrate binding site [chemical binding]; other site 434271000070 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 434271000071 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434271000072 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434271000073 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 434271000074 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 434271000075 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 434271000076 active site 434271000077 homodimer interface [polypeptide binding]; other site 434271000078 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 434271000079 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 434271000080 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434271000081 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434271000082 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 434271000083 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 434271000084 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 434271000085 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 434271000086 Cell division protein FtsQ; Region: FtsQ; pfam03799 434271000087 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 434271000088 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 434271000089 nucleotide binding site [chemical binding]; other site 434271000090 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 434271000091 Cell division protein FtsA; Region: FtsA; pfam14450 434271000092 cell division protein FtsZ; Region: ftsZ; TIGR00065 434271000093 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 434271000094 nucleotide binding site [chemical binding]; other site 434271000095 SulA interaction site; other site 434271000096 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 434271000097 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 434271000098 recombination and repair protein; Provisional; Region: PRK10869 434271000099 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 434271000100 Walker A/P-loop; other site 434271000101 ATP binding site [chemical binding]; other site 434271000102 Q-loop/lid; other site 434271000103 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 434271000104 Q-loop/lid; other site 434271000105 ABC transporter signature motif; other site 434271000106 Walker B; other site 434271000107 D-loop; other site 434271000108 H-loop/switch region; other site 434271000109 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 434271000110 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 434271000111 Walker A/P-loop; other site 434271000112 ATP binding site [chemical binding]; other site 434271000113 Q-loop/lid; other site 434271000114 ABC transporter signature motif; other site 434271000115 Walker B; other site 434271000116 D-loop; other site 434271000117 H-loop/switch region; other site 434271000118 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 434271000119 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 434271000120 Walker A/P-loop; other site 434271000121 ATP binding site [chemical binding]; other site 434271000122 Q-loop/lid; other site 434271000123 ABC transporter signature motif; other site 434271000124 Walker B; other site 434271000125 D-loop; other site 434271000126 H-loop/switch region; other site 434271000127 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 434271000128 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 434271000129 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 434271000130 dimer interface [polypeptide binding]; other site 434271000131 conserved gate region; other site 434271000132 putative PBP binding loops; other site 434271000133 ABC-ATPase subunit interface; other site 434271000134 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 434271000135 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 434271000136 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 434271000137 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 434271000138 G1 box; other site 434271000139 putative GEF interaction site [polypeptide binding]; other site 434271000140 GTP/Mg2+ binding site [chemical binding]; other site 434271000141 Switch I region; other site 434271000142 G2 box; other site 434271000143 G3 box; other site 434271000144 Switch II region; other site 434271000145 G4 box; other site 434271000146 G5 box; other site 434271000147 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 434271000148 Protein of unknown function (DUF805); Region: DUF805; pfam05656 434271000149 Protein of unknown function (DUF805); Region: DUF805; pfam05656 434271000150 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 434271000151 putative active site [active] 434271000152 catalytic residue [active] 434271000153 GTP-binding protein YchF; Reviewed; Region: PRK09601 434271000154 YchF GTPase; Region: YchF; cd01900 434271000155 G1 box; other site 434271000156 GTP/Mg2+ binding site [chemical binding]; other site 434271000157 Switch I region; other site 434271000158 G2 box; other site 434271000159 Switch II region; other site 434271000160 G3 box; other site 434271000161 G4 box; other site 434271000162 G5 box; other site 434271000163 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 434271000164 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 434271000165 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 434271000166 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 434271000167 putative metal binding site [ion binding]; other site 434271000168 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 434271000169 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 434271000170 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 434271000171 active site 434271000172 HIGH motif; other site 434271000173 KMSK motif region; other site 434271000174 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 434271000175 tRNA binding surface [nucleotide binding]; other site 434271000176 anticodon binding site; other site 434271000177 GTPase CgtA; Reviewed; Region: obgE; PRK12298 434271000178 GTP1/OBG; Region: GTP1_OBG; pfam01018 434271000179 Obg GTPase; Region: Obg; cd01898 434271000180 G1 box; other site 434271000181 GTP/Mg2+ binding site [chemical binding]; other site 434271000182 Switch I region; other site 434271000183 G2 box; other site 434271000184 G3 box; other site 434271000185 Switch II region; other site 434271000186 G4 box; other site 434271000187 G5 box; other site 434271000188 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 434271000189 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 434271000190 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 434271000191 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 434271000192 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 434271000193 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 434271000194 domain interface [polypeptide binding]; other site 434271000195 putative active site [active] 434271000196 catalytic site [active] 434271000197 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 434271000198 domain interface [polypeptide binding]; other site 434271000199 putative active site [active] 434271000200 catalytic site [active] 434271000201 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 434271000202 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 434271000203 active site 434271000204 HIGH motif; other site 434271000205 nucleotide binding site [chemical binding]; other site 434271000206 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 434271000207 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 434271000208 active site 434271000209 KMSKS motif; other site 434271000210 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 434271000211 tRNA binding surface [nucleotide binding]; other site 434271000212 anticodon binding site; other site 434271000213 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 434271000214 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 434271000215 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 434271000216 active site 434271000217 Riboflavin kinase; Region: Flavokinase; smart00904 434271000218 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 434271000219 non-specific DNA binding site [nucleotide binding]; other site 434271000220 salt bridge; other site 434271000221 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 434271000222 sequence-specific DNA binding site [nucleotide binding]; other site 434271000223 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 434271000224 active site 434271000225 nucleotide binding site [chemical binding]; other site 434271000226 HIGH motif; other site 434271000227 KMSKS motif; other site 434271000228 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 434271000229 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 434271000230 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 434271000231 active site 434271000232 metal binding site [ion binding]; metal-binding site 434271000233 two-component response regulator; Provisional; Region: PRK11173 434271000234 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 434271000235 active site 434271000236 phosphorylation site [posttranslational modification] 434271000237 intermolecular recognition site; other site 434271000238 dimerization interface [polypeptide binding]; other site 434271000239 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 434271000240 DNA binding site [nucleotide binding] 434271000241 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 434271000242 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 434271000243 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 434271000244 active site 434271000245 motif I; other site 434271000246 motif II; other site 434271000247 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 434271000248 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 434271000249 catalytic residue [active] 434271000250 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 434271000251 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 434271000252 G1 box; other site 434271000253 putative GEF interaction site [polypeptide binding]; other site 434271000254 GTP/Mg2+ binding site [chemical binding]; other site 434271000255 Switch I region; other site 434271000256 G2 box; other site 434271000257 G3 box; other site 434271000258 Switch II region; other site 434271000259 G4 box; other site 434271000260 G5 box; other site 434271000261 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 434271000262 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 434271000263 glutaredoxin 1; Provisional; Region: grxA; PRK11200 434271000264 ribonuclease PH; Reviewed; Region: rph; PRK00173 434271000265 Ribonuclease PH; Region: RNase_PH_bact; cd11362 434271000266 hexamer interface [polypeptide binding]; other site 434271000267 active site 434271000268 hypothetical protein; Provisional; Region: PRK11820 434271000269 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 434271000270 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 434271000271 putative global regulator; Reviewed; Region: PRK09559 434271000272 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 434271000273 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 434271000274 transcriptional regulator NarP; Provisional; Region: PRK10403 434271000275 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 434271000276 active site 434271000277 phosphorylation site [posttranslational modification] 434271000278 intermolecular recognition site; other site 434271000279 dimerization interface [polypeptide binding]; other site 434271000280 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 434271000281 DNA binding residues [nucleotide binding] 434271000282 dimerization interface [polypeptide binding]; other site 434271000283 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 434271000284 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 434271000285 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 434271000286 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 434271000287 putative RNA binding site [nucleotide binding]; other site 434271000288 Methyltransferase domain; Region: Methyltransf_26; pfam13659 434271000289 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 434271000290 transaldolase-like protein; Provisional; Region: PTZ00411 434271000291 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 434271000292 active site 434271000293 dimer interface [polypeptide binding]; other site 434271000294 catalytic residue [active] 434271000295 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 434271000296 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 434271000297 peptide binding site [polypeptide binding]; other site 434271000298 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 434271000299 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 434271000300 peptide binding site [polypeptide binding]; other site 434271000301 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 434271000302 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 434271000303 dimer interface [polypeptide binding]; other site 434271000304 conserved gate region; other site 434271000305 putative PBP binding loops; other site 434271000306 ABC-ATPase subunit interface; other site 434271000307 dipeptide transporter; Provisional; Region: PRK10913 434271000308 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 434271000309 dimer interface [polypeptide binding]; other site 434271000310 conserved gate region; other site 434271000311 putative PBP binding loops; other site 434271000312 ABC-ATPase subunit interface; other site 434271000313 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 434271000314 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 434271000315 Walker A/P-loop; other site 434271000316 ATP binding site [chemical binding]; other site 434271000317 Q-loop/lid; other site 434271000318 ABC transporter signature motif; other site 434271000319 Walker B; other site 434271000320 D-loop; other site 434271000321 H-loop/switch region; other site 434271000322 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 434271000323 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 434271000324 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 434271000325 Walker A/P-loop; other site 434271000326 ATP binding site [chemical binding]; other site 434271000327 Q-loop/lid; other site 434271000328 ABC transporter signature motif; other site 434271000329 Walker B; other site 434271000330 D-loop; other site 434271000331 H-loop/switch region; other site 434271000332 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 434271000333 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 434271000334 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 434271000335 nucleophilic elbow; other site 434271000336 catalytic triad; other site 434271000337 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 434271000338 homotrimer interaction site [polypeptide binding]; other site 434271000339 putative active site [active] 434271000340 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 434271000341 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 434271000342 homodimer interface [polypeptide binding]; other site 434271000343 substrate-cofactor binding pocket; other site 434271000344 catalytic residue [active] 434271000345 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 434271000346 putative GSH binding site [chemical binding]; other site 434271000347 catalytic residues [active] 434271000348 recombination protein RecR; Reviewed; Region: recR; PRK00076 434271000349 RecR protein; Region: RecR; pfam02132 434271000350 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 434271000351 putative active site [active] 434271000352 putative metal-binding site [ion binding]; other site 434271000353 tetramer interface [polypeptide binding]; other site 434271000354 hypothetical protein; Validated; Region: PRK00153 434271000355 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 434271000356 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 434271000357 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 434271000358 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 434271000359 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 434271000360 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 434271000361 active site residue [active] 434271000362 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 434271000363 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 434271000364 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 434271000365 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 434271000366 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 434271000367 Dak1 domain; Region: Dak1; pfam02733 434271000368 thioredoxin reductase; Provisional; Region: PRK10262 434271000369 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 434271000370 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 434271000371 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 434271000372 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 434271000373 Ligand binding site; other site 434271000374 oligomer interface; other site 434271000375 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 434271000376 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 434271000377 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 434271000378 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 434271000379 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 434271000380 putative NADH binding site [chemical binding]; other site 434271000381 putative active site [active] 434271000382 nudix motif; other site 434271000383 putative metal binding site [ion binding]; other site 434271000384 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 434271000385 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 434271000386 active site 434271000387 EamA-like transporter family; Region: EamA; cl17759 434271000388 EamA-like transporter family; Region: EamA; pfam00892 434271000389 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 434271000390 proline dipeptidase; Provisional; Region: PRK13607 434271000391 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 434271000392 active site 434271000393 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; cl00436 434271000394 RNase E inhibitor protein; Provisional; Region: PRK11191 434271000395 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 434271000396 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 434271000397 G1 box; other site 434271000398 GTP/Mg2+ binding site [chemical binding]; other site 434271000399 Switch I region; other site 434271000400 G2 box; other site 434271000401 G3 box; other site 434271000402 Switch II region; other site 434271000403 G4 box; other site 434271000404 G5 box; other site 434271000405 Protein of unknown function (DUF805); Region: DUF805; pfam05656 434271000406 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 434271000407 ZIP Zinc transporter; Region: Zip; pfam02535 434271000408 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 434271000409 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 434271000410 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 434271000411 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 434271000412 PYR/PP interface [polypeptide binding]; other site 434271000413 dimer interface [polypeptide binding]; other site 434271000414 TPP binding site [chemical binding]; other site 434271000415 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 434271000416 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 434271000417 TPP-binding site [chemical binding]; other site 434271000418 dimer interface [polypeptide binding]; other site 434271000419 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 434271000420 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 434271000421 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 434271000422 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 434271000423 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 434271000424 similar to serine-rich adhesin for platelets precursor 434271000425 uracil-xanthine permease; Region: ncs2; TIGR00801 434271000426 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 434271000427 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 434271000428 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 434271000429 Glutamate binding site [chemical binding]; other site 434271000430 NAD binding site [chemical binding]; other site 434271000431 catalytic residues [active] 434271000432 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 434271000433 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 434271000434 Na binding site [ion binding]; other site 434271000435 Transcriptional regulator [Transcription]; Region: IclR; COG1414 434271000436 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 434271000437 putative DNA binding site [nucleotide binding]; other site 434271000438 putative Zn2+ binding site [ion binding]; other site 434271000439 Bacterial transcriptional regulator; Region: IclR; pfam01614 434271000440 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 434271000441 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 434271000442 Cell division protein ZapA; Region: ZapA; cl01146 434271000443 hypothetical protein; Reviewed; Region: PRK01736 434271000444 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 434271000445 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 434271000446 substrate binding site [chemical binding]; other site 434271000447 active site 434271000448 Protein of unknown function (DUF416); Region: DUF416; cl01166 434271000449 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 434271000450 IHF dimer interface [polypeptide binding]; other site 434271000451 IHF - DNA interface [nucleotide binding]; other site 434271000452 thymidylate synthase; Reviewed; Region: thyA; PRK01827 434271000453 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 434271000454 dimerization interface [polypeptide binding]; other site 434271000455 active site 434271000456 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 434271000457 biotin synthase; Region: bioB; TIGR00433 434271000458 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 434271000459 FeS/SAM binding site; other site 434271000460 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 434271000461 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 434271000462 DNA-binding site [nucleotide binding]; DNA binding site 434271000463 RNA-binding motif; other site 434271000464 ProP expression regulator; Provisional; Region: PRK04950 434271000465 ProQ/FINO family; Region: ProQ; smart00945 434271000466 carboxy-terminal protease; Provisional; Region: PRK11186 434271000467 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 434271000468 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 434271000469 protein binding site [polypeptide binding]; other site 434271000470 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 434271000471 Catalytic dyad [active] 434271000472 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 434271000473 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 434271000474 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 434271000475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 434271000476 Peptidase M15; Region: Peptidase_M15_3; cl01194 434271000477 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 434271000478 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 434271000479 active site 434271000480 substrate binding site [chemical binding]; other site 434271000481 ATP binding site [chemical binding]; other site 434271000482 Phosphotransferase enzyme family; Region: APH; pfam01636 434271000483 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 434271000484 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 434271000485 putative dimer interface [polypeptide binding]; other site 434271000486 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 434271000487 nucleotide binding site/active site [active] 434271000488 HIT family signature motif; other site 434271000489 catalytic residue [active] 434271000490 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 434271000491 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 434271000492 ABC-ATPase subunit interface; other site 434271000493 dimer interface [polypeptide binding]; other site 434271000494 putative PBP binding regions; other site 434271000495 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 434271000496 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 434271000497 ABC-ATPase subunit interface; other site 434271000498 dimer interface [polypeptide binding]; other site 434271000499 putative PBP binding regions; other site 434271000500 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 434271000501 RNA/DNA hybrid binding site [nucleotide binding]; other site 434271000502 active site 434271000503 GTPase RsgA; Reviewed; Region: PRK12288 434271000504 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 434271000505 RNA binding site [nucleotide binding]; other site 434271000506 homodimer interface [polypeptide binding]; other site 434271000507 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 434271000508 GTPase/Zn-binding domain interface [polypeptide binding]; other site 434271000509 GTP/Mg2+ binding site [chemical binding]; other site 434271000510 G4 box; other site 434271000511 G5 box; other site 434271000512 G1 box; other site 434271000513 Switch I region; other site 434271000514 G2 box; other site 434271000515 G3 box; other site 434271000516 Switch II region; other site 434271000517 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 434271000518 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434271000519 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 434271000520 dimerization interface [polypeptide binding]; other site 434271000521 substrate binding pocket [chemical binding]; other site 434271000522 dUMP phosphatase; Provisional; Region: PRK09449 434271000523 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 434271000524 motif II; other site 434271000525 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 434271000526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434271000527 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 434271000528 substrate binding site [chemical binding]; other site 434271000529 dimerization interface [polypeptide binding]; other site 434271000530 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 434271000531 active site 434271000532 homotetramer interface [polypeptide binding]; other site 434271000533 homodimer interface [polypeptide binding]; other site 434271000534 CTP synthetase; Validated; Region: pyrG; PRK05380 434271000535 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 434271000536 Catalytic site [active] 434271000537 active site 434271000538 UTP binding site [chemical binding]; other site 434271000539 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 434271000540 active site 434271000541 putative oxyanion hole; other site 434271000542 catalytic triad [active] 434271000543 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 434271000544 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 434271000545 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 434271000546 substrate binding site [chemical binding]; other site 434271000547 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 434271000548 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 434271000549 substrate binding site [chemical binding]; other site 434271000550 ligand binding site [chemical binding]; other site 434271000551 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 434271000552 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 434271000553 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 434271000554 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 434271000555 fructuronate transporter; Provisional; Region: PRK10034; cl15264 434271000556 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 434271000557 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 434271000558 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 434271000559 acylphosphatase; Provisional; Region: PRK14448 434271000560 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 434271000561 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 434271000562 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 434271000563 putative active site [active] 434271000564 putative metal-binding site [ion binding]; other site 434271000565 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 434271000566 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 434271000567 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 434271000568 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 434271000569 FMN binding site [chemical binding]; other site 434271000570 active site 434271000571 catalytic residues [active] 434271000572 substrate binding site [chemical binding]; other site 434271000573 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 434271000574 dimer interface [polypeptide binding]; other site 434271000575 putative radical transfer pathway; other site 434271000576 diiron center [ion binding]; other site 434271000577 tyrosyl radical; other site 434271000578 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 434271000579 Class I ribonucleotide reductase; Region: RNR_I; cd01679 434271000580 active site 434271000581 dimer interface [polypeptide binding]; other site 434271000582 catalytic residues [active] 434271000583 effector binding site; other site 434271000584 R2 peptide binding site; other site 434271000585 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 434271000586 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 434271000587 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 434271000588 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 434271000589 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 434271000590 E3 interaction surface; other site 434271000591 lipoyl attachment site [posttranslational modification]; other site 434271000592 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 434271000593 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 434271000594 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 434271000595 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 434271000596 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 434271000597 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 434271000598 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 434271000599 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 434271000600 FAD binding pocket [chemical binding]; other site 434271000601 FAD binding motif [chemical binding]; other site 434271000602 phosphate binding motif [ion binding]; other site 434271000603 beta-alpha-beta structure motif; other site 434271000604 NAD binding pocket [chemical binding]; other site 434271000605 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 434271000606 ApbE family; Region: ApbE; pfam02424 434271000607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 434271000608 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 434271000609 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 434271000610 Ligand Binding Site [chemical binding]; other site 434271000611 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 434271000612 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 434271000613 putative substrate translocation pore; other site 434271000614 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 434271000615 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 434271000616 recombination associated protein; Reviewed; Region: rdgC; PRK00321 434271000617 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 434271000618 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 434271000619 motif II; other site 434271000620 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 434271000621 Class III ribonucleotide reductase; Region: RNR_III; cd01675 434271000622 effector binding site; other site 434271000623 active site 434271000624 Zn binding site [ion binding]; other site 434271000625 glycine loop; other site 434271000626 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: RNR_activ_nrdG3; TIGR02826 434271000627 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 434271000628 electron transport complex protein RsxA; Provisional; Region: PRK05151 434271000629 ferredoxin; Provisional; Region: PRK08764 434271000630 Putative Fe-S cluster; Region: FeS; pfam04060 434271000631 4Fe-4S binding domain; Region: Fer4; pfam00037 434271000632 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 434271000633 SLBB domain; Region: SLBB; pfam10531 434271000634 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 434271000635 Predicted membrane protein [Function unknown]; Region: COG2860 434271000636 UPF0126 domain; Region: UPF0126; pfam03458 434271000637 UPF0126 domain; Region: UPF0126; pfam03458 434271000638 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 434271000639 electron transport complex protein RnfG; Validated; Region: PRK01908 434271000640 electron transport complex RsxE subunit; Provisional; Region: PRK12405 434271000641 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 434271000642 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 434271000643 putative acyl-acceptor binding pocket; other site 434271000644 hypothetical protein; Validated; Region: PRK06886 434271000645 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 434271000646 active site 434271000647 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 434271000648 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 434271000649 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 434271000650 poly(A) polymerase; Region: pcnB; TIGR01942 434271000651 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 434271000652 active site 434271000653 NTP binding site [chemical binding]; other site 434271000654 metal binding triad [ion binding]; metal-binding site 434271000655 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 434271000656 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 434271000657 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 434271000658 catalytic center binding site [active] 434271000659 ATP binding site [chemical binding]; other site 434271000660 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 434271000661 hypothetical protein; Provisional; Region: PRK10695 434271000662 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 434271000663 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 434271000664 dimer interface [polypeptide binding]; other site 434271000665 active site 434271000666 metal binding site [ion binding]; metal-binding site 434271000667 glutathione binding site [chemical binding]; other site 434271000668 ribonuclease T; Provisional; Region: PRK05168 434271000669 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 434271000670 active site 434271000671 catalytic site [active] 434271000672 substrate binding site [chemical binding]; other site 434271000673 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 434271000674 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 434271000675 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 434271000676 prephenate dehydrogenase; Validated; Region: PRK08507 434271000677 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 434271000678 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 434271000679 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 434271000680 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 434271000681 putative active site [active] 434271000682 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 434271000683 pyruvate kinase; Provisional; Region: PRK05826 434271000684 active site 434271000685 domain interfaces; other site 434271000686 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 434271000687 catalytic core [active] 434271000688 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 434271000689 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 434271000690 FMN binding site [chemical binding]; other site 434271000691 active site 434271000692 catalytic residues [active] 434271000693 substrate binding site [chemical binding]; other site 434271000694 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 434271000695 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 434271000696 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 434271000697 Na2 binding site [ion binding]; other site 434271000698 putative substrate binding site 1 [chemical binding]; other site 434271000699 Na binding site 1 [ion binding]; other site 434271000700 putative substrate binding site 2 [chemical binding]; other site 434271000701 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 434271000702 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 434271000703 active site 434271000704 dimer interface [polypeptide binding]; other site 434271000705 metal binding site [ion binding]; metal-binding site 434271000706 shikimate kinase; Reviewed; Region: aroK; PRK00131 434271000707 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 434271000708 ADP binding site [chemical binding]; other site 434271000709 magnesium binding site [ion binding]; other site 434271000710 putative shikimate binding site; other site 434271000711 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 434271000712 Transglycosylase; Region: Transgly; pfam00912 434271000713 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 434271000714 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 434271000715 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 434271000716 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 434271000717 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 434271000718 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 434271000719 putative RNA binding site [nucleotide binding]; other site 434271000720 thiamine monophosphate kinase; Provisional; Region: PRK05731 434271000721 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 434271000722 ATP binding site [chemical binding]; other site 434271000723 dimerization interface [polypeptide binding]; other site 434271000724 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 434271000725 tetramer interfaces [polypeptide binding]; other site 434271000726 binuclear metal-binding site [ion binding]; other site 434271000727 LysE type translocator; Region: LysE; cl00565 434271000728 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 434271000729 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 434271000730 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 434271000731 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 434271000732 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 434271000733 active site 434271000734 dimerization interface [polypeptide binding]; other site 434271000735 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 434271000736 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 434271000737 TPP-binding site; other site 434271000738 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 434271000739 PYR/PP interface [polypeptide binding]; other site 434271000740 dimer interface [polypeptide binding]; other site 434271000741 TPP binding site [chemical binding]; other site 434271000742 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 434271000743 putative transposase OrfB; Reviewed; Region: PHA02517 434271000744 HTH-like domain; Region: HTH_21; pfam13276 434271000745 Integrase core domain; Region: rve; pfam00665 434271000746 Integrase core domain; Region: rve_2; pfam13333 434271000747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 434271000748 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271000749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 434271000750 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271000751 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 434271000752 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 434271000753 dimer interface [polypeptide binding]; other site 434271000754 active site 434271000755 glycine-pyridoxal phosphate binding site [chemical binding]; other site 434271000756 folate binding site [chemical binding]; other site 434271000757 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 434271000758 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 434271000759 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 434271000760 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 434271000761 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 434271000762 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 434271000763 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 434271000764 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 434271000765 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 434271000766 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 434271000767 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 434271000768 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 434271000769 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 434271000770 active site 434271000771 dimer interface [polypeptide binding]; other site 434271000772 motif 1; other site 434271000773 motif 2; other site 434271000774 motif 3; other site 434271000775 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 434271000776 anticodon binding site; other site 434271000777 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 434271000778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 434271000779 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 434271000780 translation initiation factor IF-3; Region: infC; TIGR00168 434271000781 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 434271000782 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 434271000783 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 434271000784 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 434271000785 23S rRNA binding site [nucleotide binding]; other site 434271000786 L21 binding site [polypeptide binding]; other site 434271000787 L13 binding site [polypeptide binding]; other site 434271000788 hypothetical protein; Provisional; Region: PRK06762 434271000789 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 434271000790 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 434271000791 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271000792 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271000793 HTH-like domain; Region: HTH_21; pfam13276 434271000794 Integrase core domain; Region: rve; pfam00665 434271000795 Integrase core domain; Region: rve_2; pfam13333 434271000796 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 434271000797 Domain of unknown function DUF21; Region: DUF21; pfam01595 434271000798 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 434271000799 Transporter associated domain; Region: CorC_HlyC; smart01091 434271000800 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 434271000801 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 434271000802 active site 434271000803 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 434271000804 catalytic core [active] 434271000805 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 434271000806 hypothetical protein; Validated; Region: PRK00228 434271000807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 434271000808 RNA methyltransferase, RsmE family; Region: TIGR00046 434271000809 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 434271000810 BolA-like protein; Region: BolA; cl00386 434271000811 NlpE N-terminal domain; Region: NlpE; pfam04170 434271000812 Protein of unknown function (DUF721); Region: DUF721; cl02324 434271000813 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 434271000814 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 434271000815 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 434271000816 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 434271000817 nucleotide binding region [chemical binding]; other site 434271000818 ATP-binding site [chemical binding]; other site 434271000819 SEC-C motif; Region: SEC-C; pfam02810 434271000820 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 434271000821 TPR motif; other site 434271000822 TPR repeat; Region: TPR_11; pfam13414 434271000823 binding surface 434271000824 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 434271000825 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 434271000826 active site 434271000827 8-oxo-dGMP binding site [chemical binding]; other site 434271000828 nudix motif; other site 434271000829 metal binding site [ion binding]; metal-binding site 434271000830 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 434271000831 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 434271000832 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 434271000833 homohexameric interface [polypeptide binding]; other site 434271000834 feedback inhibition sensing region; other site 434271000835 nucleotide binding site [chemical binding]; other site 434271000836 N-acetyl-L-glutamate binding site [chemical binding]; other site 434271000837 acetylornithine aminotransferase; Provisional; Region: PRK02627 434271000838 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 434271000839 inhibitor-cofactor binding pocket; inhibition site 434271000840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271000841 catalytic residue [active] 434271000842 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 434271000843 similar to transferrin-binding protein 1 precursor 434271000844 transcription termination factor Rho; Provisional; Region: rho; PRK09376 434271000845 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 434271000846 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 434271000847 RNA binding site [nucleotide binding]; other site 434271000848 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 434271000849 multimer interface [polypeptide binding]; other site 434271000850 Walker A motif; other site 434271000851 ATP binding site [chemical binding]; other site 434271000852 Walker B motif; other site 434271000853 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 434271000854 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 434271000855 dimer interface [polypeptide binding]; other site 434271000856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271000857 catalytic residue [active] 434271000858 homoserine kinase; Provisional; Region: PRK01212 434271000859 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 434271000860 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 434271000861 similar to bifunctional aspartokinase I/homoserinedehydrogenase I 434271000862 superoxide dismutase; Provisional; Region: PRK10925 434271000863 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 434271000864 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 434271000865 alanine racemase; Reviewed; Region: alr; PRK00053 434271000866 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 434271000867 active site 434271000868 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 434271000869 substrate binding site [chemical binding]; other site 434271000870 catalytic residues [active] 434271000871 dimer interface [polypeptide binding]; other site 434271000872 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 434271000873 AAA domain; Region: AAA_30; pfam13604 434271000874 Family description; Region: UvrD_C_2; pfam13538 434271000875 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 434271000876 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 434271000877 metal binding site [ion binding]; metal-binding site 434271000878 dimer interface [polypeptide binding]; other site 434271000879 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434271000880 active site 434271000881 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 434271000882 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 434271000883 catalytic site [active] 434271000884 G-X2-G-X-G-K; other site 434271000885 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 434271000886 hypothetical protein; Validated; Region: PRK01777 434271000887 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 434271000888 putative coenzyme Q binding site [chemical binding]; other site 434271000889 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 434271000890 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271000891 Walker A/P-loop; other site 434271000892 ATP binding site [chemical binding]; other site 434271000893 Q-loop/lid; other site 434271000894 ABC transporter signature motif; other site 434271000895 Walker B; other site 434271000896 D-loop; other site 434271000897 H-loop/switch region; other site 434271000898 TOBE domain; Region: TOBE; pfam03459 434271000899 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 434271000900 dimer interface [polypeptide binding]; other site 434271000901 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 434271000902 conserved gate region; other site 434271000903 putative PBP binding loops; other site 434271000904 ABC-ATPase subunit interface; other site 434271000905 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 434271000906 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 434271000907 inner membrane transport permease; Provisional; Region: PRK15066 434271000908 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 434271000909 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 434271000910 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 434271000911 Walker A/P-loop; other site 434271000912 ATP binding site [chemical binding]; other site 434271000913 Q-loop/lid; other site 434271000914 ABC transporter signature motif; other site 434271000915 Walker B; other site 434271000916 D-loop; other site 434271000917 H-loop/switch region; other site 434271000918 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 434271000919 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 434271000920 Walker A motif; other site 434271000921 ATP binding site [chemical binding]; other site 434271000922 Walker B motif; other site 434271000923 DNA polymerase III subunit delta'; Validated; Region: PRK08485 434271000924 arginine finger; other site 434271000925 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 434271000926 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 434271000927 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434271000928 active site 434271000929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 434271000930 YheO-like PAS domain; Region: PAS_6; pfam08348 434271000931 HTH domain; Region: HTH_22; pfam13309 434271000932 similar to putative translation initiation inhibitor 434271000933 threonine synthase; Validated; Region: PRK06450 434271000934 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 434271000935 homodimer interface [polypeptide binding]; other site 434271000936 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271000937 catalytic residue [active] 434271000938 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 434271000939 putative deacylase active site [active] 434271000940 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 434271000941 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 434271000942 similar to iron (chelated) ABC transporter, periplasmic-binding protein 434271000943 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 434271000944 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 434271000945 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 434271000946 YccA-like proteins; Region: YccA_like; cd10433 434271000947 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 434271000948 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 434271000949 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 434271000950 N-terminal plug; other site 434271000951 ligand-binding site [chemical binding]; other site 434271000952 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 434271000953 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 434271000954 GIY-YIG motif/motif A; other site 434271000955 active site 434271000956 catalytic site [active] 434271000957 putative DNA binding site [nucleotide binding]; other site 434271000958 metal binding site [ion binding]; metal-binding site 434271000959 UvrB/uvrC motif; Region: UVR; pfam02151 434271000960 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 434271000961 Helix-hairpin-helix motif; Region: HHH; pfam00633 434271000962 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 434271000963 active site 434271000964 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 434271000965 Part of AAA domain; Region: AAA_19; pfam13245 434271000966 Family description; Region: UvrD_C_2; pfam13538 434271000967 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 434271000968 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 434271000969 Walker A/P-loop; other site 434271000970 ATP binding site [chemical binding]; other site 434271000971 Q-loop/lid; other site 434271000972 ABC transporter signature motif; other site 434271000973 Walker B; other site 434271000974 D-loop; other site 434271000975 H-loop/switch region; other site 434271000976 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 434271000977 dimer interface [polypeptide binding]; other site 434271000978 conserved gate region; other site 434271000979 putative PBP binding loops; other site 434271000980 ABC-ATPase subunit interface; other site 434271000981 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 434271000982 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 434271000983 dimer interface [polypeptide binding]; other site 434271000984 conserved gate region; other site 434271000985 putative PBP binding loops; other site 434271000986 ABC-ATPase subunit interface; other site 434271000987 similar to Holliday junction resolvasome, DNA-binding subunit 434271000988 Holliday junction DNA helicase, RuvB subunit; Region: ruvB; TIGR00635 434271000989 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 434271000990 Walker A motif; other site 434271000991 ATP binding site [chemical binding]; other site 434271000992 Walker B motif; other site 434271000993 arginine finger; other site 434271000994 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 434271000995 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 434271000996 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 434271000997 S-adenosylmethionine binding site [chemical binding]; other site 434271000998 DNA gyrase subunit A; Validated; Region: PRK05560 434271000999 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 434271001000 CAP-like domain; other site 434271001001 active site 434271001002 primary dimer interface [polypeptide binding]; other site 434271001003 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434271001004 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434271001005 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434271001006 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434271001007 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434271001008 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434271001009 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 434271001010 HsdM N-terminal domain; Region: HsdM_N; pfam12161 434271001011 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 434271001012 S-adenosylmethionine binding site [chemical binding]; other site 434271001013 Virulence protein [General function prediction only]; Region: COG3943 434271001014 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 434271001015 Abi-like protein; Region: Abi_2; cl01988 434271001016 Abi-like protein; Region: Abi_2; cl01988 434271001017 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 434271001018 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 434271001019 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 434271001020 AAA domain; Region: AAA_13; pfam13166 434271001021 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 434271001022 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 434271001023 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 434271001024 ATP binding site [chemical binding]; other site 434271001025 putative Mg++ binding site [ion binding]; other site 434271001026 ABC transporter ATPase component; Reviewed; Region: PRK11147 434271001027 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271001028 Walker A/P-loop; other site 434271001029 ATP binding site [chemical binding]; other site 434271001030 ABC transporter signature motif; other site 434271001031 Walker B; other site 434271001032 D-loop; other site 434271001033 H-loop/switch region; other site 434271001034 ABC transporter; Region: ABC_tran_2; pfam12848 434271001035 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 434271001036 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 434271001037 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 434271001038 putative ATP binding site [chemical binding]; other site 434271001039 putative substrate interface [chemical binding]; other site 434271001040 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 434271001041 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 434271001042 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 434271001043 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 434271001044 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 434271001045 cyd operon protein YbgE; Region: cyd_oper_ybgE; TIGR02112 434271001046 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 434271001047 active site 434271001048 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 434271001049 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 434271001050 colicin uptake protein TolR; Provisional; Region: PRK11024 434271001051 TolA C-terminal; Region: TolA; pfam06519 434271001052 translocation protein TolB; Provisional; Region: tolB; PRK01742 434271001053 TolB amino-terminal domain; Region: TolB_N; pfam04052 434271001054 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 434271001055 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 434271001056 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 434271001057 ligand binding site [chemical binding]; other site 434271001058 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 434271001059 EamA-like transporter family; Region: EamA; pfam00892 434271001060 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 434271001061 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 434271001062 putative metal binding site [ion binding]; other site 434271001063 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 434271001064 HSP70 interaction site [polypeptide binding]; other site 434271001065 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 434271001066 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 434271001067 FMN binding site [chemical binding]; other site 434271001068 active site 434271001069 catalytic residues [active] 434271001070 substrate binding site [chemical binding]; other site 434271001071 hypothetical protein; Provisional; Region: PRK05415 434271001072 Domain of unknown function (DUF697); Region: DUF697; cl12064 434271001073 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 434271001074 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271001075 Walker A/P-loop; other site 434271001076 ATP binding site [chemical binding]; other site 434271001077 Q-loop/lid; other site 434271001078 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 434271001079 ABC transporter; Region: ABC_tran_2; pfam12848 434271001080 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 434271001081 similar to molybdopterin biosynthesis protein 434271001082 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 434271001083 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 434271001084 ATP binding site [chemical binding]; other site 434271001085 substrate interface [chemical binding]; other site 434271001086 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 434271001087 TRAM domain; Region: TRAM; pfam01938 434271001088 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 434271001089 S-adenosylmethionine binding site [chemical binding]; other site 434271001090 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 434271001091 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 434271001092 Zn2+ binding site [ion binding]; other site 434271001093 Mg2+ binding site [ion binding]; other site 434271001094 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 434271001095 ATP-dependent helicase HepA; Validated; Region: PRK04914 434271001096 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 434271001097 ATP binding site [chemical binding]; other site 434271001098 putative Mg++ binding site [ion binding]; other site 434271001099 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 434271001100 nucleotide binding region [chemical binding]; other site 434271001101 ATP-binding site [chemical binding]; other site 434271001102 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 434271001103 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 434271001104 active site 434271001105 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 434271001106 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 434271001107 amidase catalytic site [active] 434271001108 Zn binding residues [ion binding]; other site 434271001109 substrate binding site [chemical binding]; other site 434271001110 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 434271001111 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434271001112 active site 434271001113 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 434271001114 substrate binding site [chemical binding]; other site 434271001115 THF binding site; other site 434271001116 zinc-binding site [ion binding]; other site 434271001117 cystathionine beta-lyase; Provisional; Region: PRK08114 434271001118 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 434271001119 homodimer interface [polypeptide binding]; other site 434271001120 substrate-cofactor binding pocket; other site 434271001121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271001122 catalytic residue [active] 434271001123 disulfide bond formation protein B; Provisional; Region: PRK01749 434271001124 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 434271001125 fatty acid metabolism regulator; Provisional; Region: PRK04984 434271001126 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 434271001127 DNA-binding site [nucleotide binding]; DNA binding site 434271001128 FadR C-terminal domain; Region: FadR_C; pfam07840 434271001129 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 434271001130 PhoH-like protein; Region: PhoH; pfam02562 434271001131 Predicted permeases [General function prediction only]; Region: COG0679 434271001132 peptide chain release factor 2; Provisional; Region: PRK08787 434271001133 This domain is found in peptide chain release factors; Region: PCRF; smart00937 434271001134 RF-1 domain; Region: RF-1; pfam00472 434271001135 selenophosphate synthetase; Provisional; Region: PRK00943 434271001136 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 434271001137 dimerization interface [polypeptide binding]; other site 434271001138 putative ATP binding site [chemical binding]; other site 434271001139 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 434271001140 nudix motif; other site 434271001141 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 434271001142 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 434271001143 hypothetical protein; Provisional; Region: PRK11281 434271001144 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 434271001145 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 434271001146 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 434271001147 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 434271001148 active site 434271001149 phosphorylation site [posttranslational modification] 434271001150 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 434271001151 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 434271001152 Walker A/P-loop; other site 434271001153 ATP binding site [chemical binding]; other site 434271001154 Q-loop/lid; other site 434271001155 ABC transporter signature motif; other site 434271001156 Walker B; other site 434271001157 D-loop; other site 434271001158 H-loop/switch region; other site 434271001159 OstA-like protein; Region: OstA; cl00844 434271001160 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 434271001161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 434271001162 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 434271001163 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 434271001164 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 434271001165 Repair protein; Region: Repair_PSII; pfam04536 434271001166 Repair protein; Region: Repair_PSII; cl01535 434271001167 LemA family; Region: LemA; pfam04011 434271001168 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 434271001169 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 434271001170 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 434271001171 active site 434271001172 P-loop; other site 434271001173 phosphorylation site [posttranslational modification] 434271001174 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 434271001175 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 434271001176 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 434271001177 putative substrate binding site [chemical binding]; other site 434271001178 putative ATP binding site [chemical binding]; other site 434271001179 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 434271001180 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 434271001181 active site 434271001182 phosphorylation site [posttranslational modification] 434271001183 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 434271001184 dimerization domain swap beta strand [polypeptide binding]; other site 434271001185 regulatory protein interface [polypeptide binding]; other site 434271001186 active site 434271001187 regulatory phosphorylation site [posttranslational modification]; other site 434271001188 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 434271001189 dimerization domain swap beta strand [polypeptide binding]; other site 434271001190 regulatory protein interface [polypeptide binding]; other site 434271001191 active site 434271001192 regulatory phosphorylation site [posttranslational modification]; other site 434271001193 glycogen branching enzyme; Provisional; Region: PRK05402 434271001194 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 434271001195 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 434271001196 active site 434271001197 catalytic site [active] 434271001198 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 434271001199 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 434271001200 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 434271001201 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 434271001202 active site 434271001203 catalytic site [active] 434271001204 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 434271001205 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 434271001206 ligand binding site; other site 434271001207 oligomer interface; other site 434271001208 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 434271001209 dimer interface [polypeptide binding]; other site 434271001210 N-terminal domain interface [polypeptide binding]; other site 434271001211 sulfate 1 binding site; other site 434271001212 glycogen synthase; Provisional; Region: glgA; PRK00654 434271001213 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 434271001214 ADP-binding pocket [chemical binding]; other site 434271001215 homodimer interface [polypeptide binding]; other site 434271001216 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 434271001217 homodimer interface [polypeptide binding]; other site 434271001218 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 434271001219 active site pocket [active] 434271001220 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 434271001221 active site 434271001222 multimer interface [polypeptide binding]; other site 434271001223 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 434271001224 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 434271001225 active site 434271001226 HIGH motif; other site 434271001227 KMSKS motif; other site 434271001228 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 434271001229 tRNA binding surface [nucleotide binding]; other site 434271001230 anticodon binding site; other site 434271001231 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 434271001232 dimer interface [polypeptide binding]; other site 434271001233 putative tRNA-binding site [nucleotide binding]; other site 434271001234 O-succinylbenzoate synthase; Provisional; Region: PRK05105 434271001235 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 434271001236 active site 434271001237 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 434271001238 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 434271001239 RNA binding surface [nucleotide binding]; other site 434271001240 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 434271001241 active site 434271001242 uracil binding [chemical binding]; other site 434271001243 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 434271001244 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 434271001245 putative substrate translocation pore; other site 434271001246 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 434271001247 endonuclease IV; Provisional; Region: PRK01060 434271001248 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 434271001249 AP (apurinic/apyrimidinic) site pocket; other site 434271001250 DNA interaction; other site 434271001251 Metal-binding active site; metal-binding site 434271001252 NlpC/P60 family; Region: NLPC_P60; pfam00877 434271001253 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 434271001254 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 434271001255 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 434271001256 ligand binding site [chemical binding]; other site 434271001257 active site 434271001258 UGI interface [polypeptide binding]; other site 434271001259 catalytic site [active] 434271001260 Protein of unknown function (DUF535); Region: DUF535; pfam04393 434271001261 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 434271001262 catalytic triad [active] 434271001263 putative active site [active] 434271001264 Autotransporter beta-domain; Region: Autotransporter; smart00869 434271001265 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 434271001266 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 434271001267 ATP binding site [chemical binding]; other site 434271001268 putative Mg++ binding site [ion binding]; other site 434271001269 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 434271001270 nucleotide binding region [chemical binding]; other site 434271001271 ATP-binding site [chemical binding]; other site 434271001272 Helicase associated domain (HA2); Region: HA2; pfam04408 434271001273 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 434271001274 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 434271001275 Predicted membrane protein [Function unknown]; Region: COG2707 434271001276 GrpE; Region: GrpE; pfam01025 434271001277 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 434271001278 dimer interface [polypeptide binding]; other site 434271001279 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 434271001280 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 434271001281 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 434271001282 multidrug efflux protein; Reviewed; Region: PRK01766 434271001283 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 434271001284 cation binding site [ion binding]; other site 434271001285 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 434271001286 Part of AAA domain; Region: AAA_19; pfam13245 434271001287 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 434271001288 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 434271001289 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 434271001290 putative active site [active] 434271001291 catalytic triad [active] 434271001292 putative dimer interface [polypeptide binding]; other site 434271001293 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 434271001294 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 434271001295 Transporter associated domain; Region: CorC_HlyC; smart01091 434271001296 hypothetical protein; Provisional; Region: PRK01904 434271001297 hypothetical protein; Provisional; Region: PRK03641 434271001298 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 434271001299 amphipathic channel; other site 434271001300 Asn-Pro-Ala signature motifs; other site 434271001301 glycerol kinase; Provisional; Region: glpK; PRK00047 434271001302 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 434271001303 N- and C-terminal domain interface [polypeptide binding]; other site 434271001304 active site 434271001305 MgATP binding site [chemical binding]; other site 434271001306 catalytic site [active] 434271001307 metal binding site [ion binding]; metal-binding site 434271001308 glycerol binding site [chemical binding]; other site 434271001309 homotetramer interface [polypeptide binding]; other site 434271001310 homodimer interface [polypeptide binding]; other site 434271001311 FBP binding site [chemical binding]; other site 434271001312 protein IIAGlc interface [polypeptide binding]; other site 434271001313 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 434271001314 Found in ATP-dependent protease La (LON); Region: LON; smart00464 434271001315 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 434271001316 Walker A motif; other site 434271001317 ATP binding site [chemical binding]; other site 434271001318 Walker B motif; other site 434271001319 arginine finger; other site 434271001320 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 434271001321 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 434271001322 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 434271001323 putative substrate translocation pore; other site 434271001324 similar to glycerophosphoryl diester phosphodiesterase 434271001325 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 434271001326 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 434271001327 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 434271001328 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 434271001329 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 434271001330 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 434271001331 Cysteine-rich domain; Region: CCG; pfam02754 434271001332 Cysteine-rich domain; Region: CCG; pfam02754 434271001333 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 434271001334 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 434271001335 catalytic motif [active] 434271001336 Zn binding site [ion binding]; other site 434271001337 RibD C-terminal domain; Region: RibD_C; cl17279 434271001338 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 434271001339 Lumazine binding domain; Region: Lum_binding; pfam00677 434271001340 Lumazine binding domain; Region: Lum_binding; pfam00677 434271001341 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 434271001342 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 434271001343 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 434271001344 dimerization interface [polypeptide binding]; other site 434271001345 active site 434271001346 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 434271001347 homopentamer interface [polypeptide binding]; other site 434271001348 active site 434271001349 Transposase, Mutator family; Region: Transposase_mut; pfam00872 434271001350 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 434271001351 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 434271001352 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 434271001353 KpsF/GutQ family protein; Region: kpsF; TIGR00393 434271001354 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 434271001355 putative active site [active] 434271001356 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 434271001357 aminopeptidase B; Provisional; Region: PRK05015 434271001358 Peptidase; Region: DUF3663; pfam12404 434271001359 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 434271001360 interface (dimer of trimers) [polypeptide binding]; other site 434271001361 Substrate-binding/catalytic site; other site 434271001362 Zn-binding sites [ion binding]; other site 434271001363 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 434271001364 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 434271001365 Sodium Bile acid symporter family; Region: SBF; pfam01758 434271001366 macrolide transporter subunit MacA; Provisional; Region: PRK11578 434271001367 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 434271001368 HlyD family secretion protein; Region: HlyD_3; pfam13437 434271001369 putative hydrolase; Provisional; Region: PRK10976 434271001370 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 434271001371 active site 434271001372 motif I; other site 434271001373 motif II; other site 434271001374 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 434271001375 2-isopropylmalate synthase; Validated; Region: PRK00915 434271001376 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 434271001377 active site 434271001378 catalytic residues [active] 434271001379 metal binding site [ion binding]; metal-binding site 434271001380 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 434271001381 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 434271001382 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 434271001383 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 434271001384 DNA binding residues [nucleotide binding] 434271001385 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 434271001386 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 434271001387 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 434271001388 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 434271001389 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 434271001390 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 434271001391 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 434271001392 acyl-activating enzyme (AAE) consensus motif; other site 434271001393 putative AMP binding site [chemical binding]; other site 434271001394 putative active site [active] 434271001395 putative CoA binding site [chemical binding]; other site 434271001396 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434271001397 active site 434271001398 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 434271001399 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 434271001400 S-adenosylmethionine binding site [chemical binding]; other site 434271001401 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 434271001402 SurA N-terminal domain; Region: SurA_N; pfam09312 434271001403 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 434271001404 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 434271001405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434271001406 active site 434271001407 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 434271001408 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 434271001409 putative ribose interaction site [chemical binding]; other site 434271001410 putative ADP binding site [chemical binding]; other site 434271001411 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 434271001412 active site 434271001413 nucleotide binding site [chemical binding]; other site 434271001414 HIGH motif; other site 434271001415 KMSKS motif; other site 434271001416 GTP-binding protein Der; Reviewed; Region: PRK00093 434271001417 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 434271001418 G1 box; other site 434271001419 GTP/Mg2+ binding site [chemical binding]; other site 434271001420 Switch I region; other site 434271001421 G2 box; other site 434271001422 Switch II region; other site 434271001423 G3 box; other site 434271001424 G4 box; other site 434271001425 G5 box; other site 434271001426 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 434271001427 G1 box; other site 434271001428 GTP/Mg2+ binding site [chemical binding]; other site 434271001429 Switch I region; other site 434271001430 G2 box; other site 434271001431 G3 box; other site 434271001432 Switch II region; other site 434271001433 G4 box; other site 434271001434 G5 box; other site 434271001435 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 434271001436 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 434271001437 tRNA; other site 434271001438 putative tRNA binding site [nucleotide binding]; other site 434271001439 putative NADP binding site [chemical binding]; other site 434271001440 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 434271001441 similar to GTP pyrophosphokinase 434271001442 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 434271001443 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 434271001444 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 434271001445 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 434271001446 Transposase, Mutator family; Region: Transposase_mut; pfam00872 434271001447 similar to UDP-N-acetylglucosamine O-acyltransferase 434271001448 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 434271001449 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 434271001450 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 434271001451 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 434271001452 trimer interface [polypeptide binding]; other site 434271001453 active site 434271001454 UDP-GlcNAc binding site [chemical binding]; other site 434271001455 lipid binding site [chemical binding]; lipid-binding site 434271001456 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 434271001457 periplasmic chaperone; Provisional; Region: PRK10780 434271001458 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 434271001459 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 434271001460 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 434271001461 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 434271001462 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 434271001463 Surface antigen; Region: Bac_surface_Ag; pfam01103 434271001464 zinc metallopeptidase RseP; Provisional; Region: PRK10779 434271001465 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 434271001466 active site 434271001467 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 434271001468 protein binding site [polypeptide binding]; other site 434271001469 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 434271001470 putative substrate binding region [chemical binding]; other site 434271001471 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 434271001472 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 434271001473 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 434271001474 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 434271001475 catalytic residue [active] 434271001476 putative FPP diphosphate binding site; other site 434271001477 putative FPP binding hydrophobic cleft; other site 434271001478 dimer interface [polypeptide binding]; other site 434271001479 putative IPP diphosphate binding site; other site 434271001480 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 434271001481 fructokinase; Reviewed; Region: PRK09557 434271001482 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 434271001483 nucleotide binding site [chemical binding]; other site 434271001484 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 434271001485 active site 434271001486 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 434271001487 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 434271001488 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 434271001489 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 434271001490 putative metal binding site; other site 434271001491 similar to penicillin-binding protein 7 precursor 434271001492 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 434271001493 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 434271001494 putative active site [active] 434271001495 argininosuccinate synthase; Validated; Region: PRK05370 434271001496 argininosuccinate synthase; Provisional; Region: PRK13820 434271001497 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 434271001498 RNA/DNA hybrid binding site [nucleotide binding]; other site 434271001499 active site 434271001500 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 434271001501 Colicin V production protein; Region: Colicin_V; cl00567 434271001502 amidophosphoribosyltransferase; Provisional; Region: PRK09246 434271001503 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 434271001504 active site 434271001505 tetramer interface [polypeptide binding]; other site 434271001506 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434271001507 active site 434271001508 glutamate dehydrogenase; Provisional; Region: PRK09414 434271001509 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 434271001510 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 434271001511 NAD(P) binding site [chemical binding]; other site 434271001512 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 434271001513 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 434271001514 Nucleoid-associated protein [General function prediction only]; Region: COG3081 434271001515 nucleoid-associated protein NdpA; Validated; Region: PRK00378 434271001516 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 434271001517 homotrimer interaction site [polypeptide binding]; other site 434271001518 putative active site [active] 434271001519 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 434271001520 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 434271001521 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 434271001522 tartrate dehydrogenase; Region: TTC; TIGR02089 434271001523 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 434271001524 methionine sulfoxide reductase B; Provisional; Region: PRK00222 434271001525 SelR domain; Region: SelR; pfam01641 434271001526 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 434271001527 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 434271001528 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 434271001529 rod shape-determining protein MreB; Provisional; Region: PRK13927 434271001530 MreB and similar proteins; Region: MreB_like; cd10225 434271001531 nucleotide binding site [chemical binding]; other site 434271001532 Mg binding site [ion binding]; other site 434271001533 putative protofilament interaction site [polypeptide binding]; other site 434271001534 RodZ interaction site [polypeptide binding]; other site 434271001535 rod shape-determining protein MreC; Region: mreC; TIGR00219 434271001536 rod shape-determining protein MreC; Region: MreC; pfam04085 434271001537 rod shape-determining protein MreD; Region: MreD; cl01087 434271001538 recombination factor protein RarA; Reviewed; Region: PRK13342 434271001539 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 434271001540 Walker A motif; other site 434271001541 ATP binding site [chemical binding]; other site 434271001542 Walker B motif; other site 434271001543 arginine finger; other site 434271001544 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 434271001545 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 434271001546 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 434271001547 ABC-ATPase subunit interface; other site 434271001548 dimer interface [polypeptide binding]; other site 434271001549 putative PBP binding regions; other site 434271001550 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 434271001551 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 434271001552 putative active site [active] 434271001553 putative dimer interface [polypeptide binding]; other site 434271001554 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 434271001555 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 434271001556 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 434271001557 putative active site [active] 434271001558 similar to autotransporter adhesin 434271001559 Uncharacterized conserved protein [Function unknown]; Region: COG1556 434271001560 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 434271001561 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 434271001562 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 434271001563 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 434271001564 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 434271001565 Cysteine-rich domain; Region: CCG; pfam02754 434271001566 Cysteine-rich domain; Region: CCG; pfam02754 434271001567 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 434271001568 L-lactate permease; Region: Lactate_perm; cl00701 434271001569 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 434271001570 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 434271001571 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 434271001572 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 434271001573 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 434271001574 ligand binding site [chemical binding]; other site 434271001575 calcium binding site [ion binding]; other site 434271001576 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 434271001577 CoA binding domain; Region: CoA_binding; pfam02629 434271001578 CoA-ligase; Region: Ligase_CoA; pfam00549 434271001579 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 434271001580 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 434271001581 CoA-ligase; Region: Ligase_CoA; pfam00549 434271001582 Protein of unknown function (DUF535); Region: DUF535; pfam04393 434271001583 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 434271001584 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 434271001585 E3 interaction surface; other site 434271001586 lipoyl attachment site [posttranslational modification]; other site 434271001587 e3 binding domain; Region: E3_binding; pfam02817 434271001588 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 434271001589 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 434271001590 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 434271001591 TPP-binding site [chemical binding]; other site 434271001592 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 434271001593 dimer interface [polypeptide binding]; other site 434271001594 PYR/PP interface [polypeptide binding]; other site 434271001595 TPP binding site [chemical binding]; other site 434271001596 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 434271001597 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 434271001598 TIGR02300 family protein; Region: FYDLN_acid 434271001599 putative peptidase; Provisional; Region: PRK11649 434271001600 Peptidase family M23; Region: Peptidase_M23; pfam01551 434271001601 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 434271001602 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 434271001603 dimerization domain [polypeptide binding]; other site 434271001604 dimer interface [polypeptide binding]; other site 434271001605 catalytic residues [active] 434271001606 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 434271001607 DHH family; Region: DHH; pfam01368 434271001608 DHHA1 domain; Region: DHHA1; pfam02272 434271001609 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 434271001610 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 434271001611 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 434271001612 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 434271001613 ligand binding site [chemical binding]; other site 434271001614 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 434271001615 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 434271001616 active site 434271001617 motif I; other site 434271001618 motif II; other site 434271001619 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 434271001620 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 434271001621 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 434271001622 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 434271001623 dimerization interface [polypeptide binding]; other site 434271001624 Histidine kinase; Region: HisKA_3; pfam07730 434271001625 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 434271001626 ATP binding site [chemical binding]; other site 434271001627 Mg2+ binding site [ion binding]; other site 434271001628 G-X-G motif; other site 434271001629 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 434271001630 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434271001631 Coenzyme A binding pocket [chemical binding]; other site 434271001632 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 434271001633 active site 434271001634 dimerization interface [polypeptide binding]; other site 434271001635 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 434271001636 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 434271001637 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 434271001638 Potassium binding sites [ion binding]; other site 434271001639 Cesium cation binding sites [ion binding]; other site 434271001640 hypothetical protein; Provisional; Region: PRK05170 434271001641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434271001642 malonic semialdehyde reductase; Provisional; Region: PRK10538 434271001643 NAD(P) binding site [chemical binding]; other site 434271001644 active site 434271001645 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 434271001646 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 434271001647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271001648 catalytic residue [active] 434271001649 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 434271001650 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 434271001651 substrate binding site [chemical binding]; other site 434271001652 active site 434271001653 catalytic residues [active] 434271001654 heterodimer interface [polypeptide binding]; other site 434271001655 DNA polymerase I; Provisional; Region: PRK05755 434271001656 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 434271001657 active site 434271001658 putative 5' ssDNA interaction site; other site 434271001659 metal binding site 3; metal-binding site 434271001660 metal binding site 1 [ion binding]; metal-binding site 434271001661 metal binding site 2 [ion binding]; metal-binding site 434271001662 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 434271001663 putative DNA binding site [nucleotide binding]; other site 434271001664 putative metal binding site [ion binding]; other site 434271001665 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 434271001666 active site 434271001667 catalytic site [active] 434271001668 substrate binding site [chemical binding]; other site 434271001669 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 434271001670 active site 434271001671 DNA binding site [nucleotide binding] 434271001672 catalytic site [active] 434271001673 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 434271001674 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 434271001675 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 434271001676 Trp operon repressor; Provisional; Region: PRK01381 434271001677 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 434271001678 Transglycosylase; Region: Transgly; cl17702 434271001679 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 434271001680 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 434271001681 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 434271001682 gating phenylalanine in ion channel; other site 434271001683 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 434271001684 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 434271001685 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 434271001686 dimerization interface [polypeptide binding]; other site 434271001687 putative DNA binding site [nucleotide binding]; other site 434271001688 putative Zn2+ binding site [ion binding]; other site 434271001689 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 434271001690 dimer interface [polypeptide binding]; other site 434271001691 FMN binding site [chemical binding]; other site 434271001692 NADPH bind site [chemical binding]; other site 434271001693 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 434271001694 ATP-grasp domain; Region: ATP-grasp_4; cl17255 434271001695 Uncharacterized conserved protein [Function unknown]; Region: COG1434 434271001696 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 434271001697 putative active site [active] 434271001698 similar to malate oxidoreductase (NAD) 434271001699 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 434271001700 5S rRNA interface [nucleotide binding]; other site 434271001701 CTC domain interface [polypeptide binding]; other site 434271001702 L16 interface [polypeptide binding]; other site 434271001703 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 434271001704 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 434271001705 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 434271001706 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 434271001707 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 434271001708 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 434271001709 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271001710 ABC transporter signature motif; other site 434271001711 Walker B; other site 434271001712 D-loop; other site 434271001713 H-loop/switch region; other site 434271001714 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 434271001715 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 434271001716 thiS-thiF/thiG interaction site; other site 434271001717 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 434271001718 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 434271001719 phosphate binding site [ion binding]; other site 434271001720 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 434271001721 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 434271001722 FeS/SAM binding site; other site 434271001723 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 434271001724 Putative transcription activator [Transcription]; Region: TenA; COG0819 434271001725 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 434271001726 NMT1/THI5 like; Region: NMT1; pfam09084 434271001727 similar to phosphomethylpyrimidine kinase 434271001728 similar to thiamine monophosphate synthase 434271001729 GTP-binding protein LepA; Provisional; Region: PRK05433 434271001730 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 434271001731 G1 box; other site 434271001732 putative GEF interaction site [polypeptide binding]; other site 434271001733 GTP/Mg2+ binding site [chemical binding]; other site 434271001734 Switch I region; other site 434271001735 G2 box; other site 434271001736 G3 box; other site 434271001737 Switch II region; other site 434271001738 G4 box; other site 434271001739 G5 box; other site 434271001740 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 434271001741 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 434271001742 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 434271001743 signal peptidase I; Provisional; Region: PRK10861 434271001744 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 434271001745 Catalytic site [active] 434271001746 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 434271001747 ribonuclease III; Reviewed; Region: rnc; PRK00102 434271001748 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 434271001749 dimerization interface [polypeptide binding]; other site 434271001750 active site 434271001751 metal binding site [ion binding]; metal-binding site 434271001752 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 434271001753 dsRNA binding site [nucleotide binding]; other site 434271001754 GTPase Era; Reviewed; Region: era; PRK00089 434271001755 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 434271001756 G1 box; other site 434271001757 GTP/Mg2+ binding site [chemical binding]; other site 434271001758 Switch I region; other site 434271001759 G2 box; other site 434271001760 Switch II region; other site 434271001761 G3 box; other site 434271001762 G4 box; other site 434271001763 G5 box; other site 434271001764 KH domain; Region: KH_2; pfam07650 434271001765 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 434271001766 Recombination protein O N terminal; Region: RecO_N; pfam11967 434271001767 Recombination protein O C terminal; Region: RecO_C; pfam02565 434271001768 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 434271001769 TadE-like protein; Region: TadE; pfam07811 434271001770 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 434271001771 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 434271001772 binding surface 434271001773 TPR motif; other site 434271001774 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 434271001775 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 434271001776 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 434271001777 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 434271001778 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 434271001779 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 434271001780 ATP binding site [chemical binding]; other site 434271001781 Walker A motif; other site 434271001782 hexamer interface [polypeptide binding]; other site 434271001783 Walker B motif; other site 434271001784 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 434271001785 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 434271001786 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 434271001787 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 434271001788 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 434271001789 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 434271001790 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 434271001791 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 434271001792 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 434271001793 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 434271001794 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 434271001795 dimer interface [polypeptide binding]; other site 434271001796 conserved gate region; other site 434271001797 putative PBP binding loops; other site 434271001798 ABC-ATPase subunit interface; other site 434271001799 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 434271001800 dimer interface [polypeptide binding]; other site 434271001801 conserved gate region; other site 434271001802 putative PBP binding loops; other site 434271001803 ABC-ATPase subunit interface; other site 434271001804 similar to outer membrane receptor protein, mostly Fe transport 434271001805 similar to SbmA protein 434271001806 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 434271001807 rRNA interaction site [nucleotide binding]; other site 434271001808 S8 interaction site; other site 434271001809 putative laminin-1 binding site; other site 434271001810 elongation factor Ts; Provisional; Region: tsf; PRK09377 434271001811 UBA/TS-N domain; Region: UBA; pfam00627 434271001812 Elongation factor TS; Region: EF_TS; pfam00889 434271001813 Elongation factor TS; Region: EF_TS; pfam00889 434271001814 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 434271001815 Sulfatase; Region: Sulfatase; pfam00884 434271001816 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 434271001817 putative nucleotide binding site [chemical binding]; other site 434271001818 uridine monophosphate binding site [chemical binding]; other site 434271001819 homohexameric interface [polypeptide binding]; other site 434271001820 ribosome recycling factor; Reviewed; Region: frr; PRK00083 434271001821 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 434271001822 hinge region; other site 434271001823 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 434271001824 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 434271001825 DNA-binding site [nucleotide binding]; DNA binding site 434271001826 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 434271001827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271001828 homodimer interface [polypeptide binding]; other site 434271001829 catalytic residue [active] 434271001830 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 434271001831 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 434271001832 active site 434271001833 multimer interface [polypeptide binding]; other site 434271001834 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 434271001835 imidazole glycerol phosphate synthase, glutamine amidotransferase subunit; Region: IMP_synth_hisH; TIGR01855 434271001836 predicted active site [active] 434271001837 catalytic triad [active] 434271001838 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 434271001839 nucleoside/Zn binding site; other site 434271001840 dimer interface [polypeptide binding]; other site 434271001841 catalytic motif [active] 434271001842 helicase 45; Provisional; Region: PTZ00424 434271001843 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 434271001844 ATP binding site [chemical binding]; other site 434271001845 Mg++ binding site [ion binding]; other site 434271001846 motif III; other site 434271001847 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 434271001848 nucleotide binding region [chemical binding]; other site 434271001849 ATP-binding site [chemical binding]; other site 434271001850 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 434271001851 putative RNA binding site [nucleotide binding]; other site 434271001852 lipoprotein NlpI; Provisional; Region: PRK11189 434271001853 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 434271001854 binding surface 434271001855 TPR motif; other site 434271001856 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 434271001857 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 434271001858 RNase E interface [polypeptide binding]; other site 434271001859 trimer interface [polypeptide binding]; other site 434271001860 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 434271001861 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 434271001862 RNase E interface [polypeptide binding]; other site 434271001863 trimer interface [polypeptide binding]; other site 434271001864 active site 434271001865 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 434271001866 putative nucleic acid binding region [nucleotide binding]; other site 434271001867 G-X-X-G motif; other site 434271001868 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 434271001869 RNA binding site [nucleotide binding]; other site 434271001870 domain interface; other site 434271001871 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 434271001872 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 434271001873 CAP-like domain; other site 434271001874 active site 434271001875 primary dimer interface [polypeptide binding]; other site 434271001876 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 434271001877 condesin subunit F; Provisional; Region: PRK05260 434271001878 condesin subunit E; Provisional; Region: PRK05256 434271001879 cell division protein MukB; Provisional; Region: mukB; PRK04863 434271001880 P-loop containing region of AAA domain; Region: AAA_29; cl17516 434271001881 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 434271001882 putative arabinose transporter; Provisional; Region: PRK03545 434271001883 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 434271001884 putative substrate translocation pore; other site 434271001885 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 434271001886 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 434271001887 Sulfatase; Region: Sulfatase; cl17466 434271001888 hypothetical protein; Provisional; Region: PRK13689 434271001889 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 434271001890 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 434271001891 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 434271001892 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 434271001893 HlyD family secretion protein; Region: HlyD_3; pfam13437 434271001894 multidrug efflux protein; Reviewed; Region: PRK09579 434271001895 Protein export membrane protein; Region: SecD_SecF; cl14618 434271001896 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 434271001897 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 434271001898 Substrate binding site; other site 434271001899 Mg++ binding site; other site 434271001900 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 434271001901 active site 434271001902 substrate binding site [chemical binding]; other site 434271001903 CoA binding site [chemical binding]; other site 434271001904 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 434271001905 CHY zinc finger; Region: zf-CHY; pfam05495 434271001906 Domain of unknown function (DUF1919); Region: DUF1919; pfam08942 434271001907 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 434271001908 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 434271001909 active site 434271001910 substrate binding site [chemical binding]; other site 434271001911 metal binding site [ion binding]; metal-binding site 434271001912 GMP synthase; Reviewed; Region: guaA; PRK00074 434271001913 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 434271001914 AMP/PPi binding site [chemical binding]; other site 434271001915 candidate oxyanion hole; other site 434271001916 catalytic triad [active] 434271001917 potential glutamine specificity residues [chemical binding]; other site 434271001918 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 434271001919 ATP Binding subdomain [chemical binding]; other site 434271001920 Ligand Binding sites [chemical binding]; other site 434271001921 Dimerization subdomain; other site 434271001922 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 434271001923 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 434271001924 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 434271001925 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 434271001926 active site 434271001927 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 434271001928 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 434271001929 S-adenosylmethionine binding site [chemical binding]; other site 434271001930 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 434271001931 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 434271001932 Walker A motif; other site 434271001933 ATP binding site [chemical binding]; other site 434271001934 Walker B motif; other site 434271001935 arginine finger; other site 434271001936 Peptidase family M41; Region: Peptidase_M41; pfam01434 434271001937 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 434271001938 aromatic amino acid transport protein; Region: araaP; TIGR00837 434271001939 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 434271001940 aromatic amino acid transport protein; Region: araaP; TIGR00837 434271001941 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 434271001942 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 434271001943 metal binding triad; other site 434271001944 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 434271001945 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 434271001946 Zn2+ binding site [ion binding]; other site 434271001947 Mg2+ binding site [ion binding]; other site 434271001948 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 434271001949 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 434271001950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 434271001951 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 434271001952 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 434271001953 23S rRNA interface [nucleotide binding]; other site 434271001954 L3 interface [polypeptide binding]; other site 434271001955 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 434271001956 hypothetical protein; Validated; Region: PRK02101 434271001957 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 434271001958 Cation efflux family; Region: Cation_efflux; cl00316 434271001959 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 434271001960 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 434271001961 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 434271001962 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 434271001963 dimer interface [polypeptide binding]; other site 434271001964 FMN binding site [chemical binding]; other site 434271001965 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 434271001966 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 434271001967 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 434271001968 dimer interface [polypeptide binding]; other site 434271001969 motif 1; other site 434271001970 active site 434271001971 motif 2; other site 434271001972 motif 3; other site 434271001973 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 434271001974 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 434271001975 putative tRNA-binding site [nucleotide binding]; other site 434271001976 B3/4 domain; Region: B3_4; pfam03483 434271001977 tRNA synthetase B5 domain; Region: B5; smart00874 434271001978 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 434271001979 dimer interface [polypeptide binding]; other site 434271001980 motif 1; other site 434271001981 motif 3; other site 434271001982 motif 2; other site 434271001983 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 434271001984 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 434271001985 IHF dimer interface [polypeptide binding]; other site 434271001986 IHF - DNA interface [nucleotide binding]; other site 434271001987 NlpC/P60 family; Region: NLPC_P60; pfam00877 434271001988 Integrase core domain; Region: rve; pfam00665 434271001989 Integrase core domain; Region: rve_2; pfam13333 434271001990 HTH-like domain; Region: HTH_21; pfam13276 434271001991 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 434271001992 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271001993 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271001994 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 434271001995 AAA domain; Region: AAA_26; pfam13500 434271001996 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 434271001997 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 434271001998 ribonuclease D; Provisional; Region: PRK10829 434271001999 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 434271002000 catalytic site [active] 434271002001 putative active site [active] 434271002002 putative substrate binding site [chemical binding]; other site 434271002003 HRDC domain; Region: HRDC; pfam00570 434271002004 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 434271002005 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 434271002006 dimerization interface [polypeptide binding]; other site 434271002007 putative DNA binding site [nucleotide binding]; other site 434271002008 putative Zn2+ binding site [ion binding]; other site 434271002009 AsnC family; Region: AsnC_trans_reg; pfam01037 434271002010 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 434271002011 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 434271002012 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 434271002013 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 434271002014 Predicted metalloprotease [General function prediction only]; Region: COG2321 434271002015 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 434271002016 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 434271002017 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 434271002018 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 434271002019 Glycoprotease family; Region: Peptidase_M22; pfam00814 434271002020 thymidine kinase; Provisional; Region: PRK04296 434271002021 Protein of unknown function (DUF904); Region: DUF904; pfam06005 434271002022 fructose 1,6-bisphosphatase II; Reviewed; Region: glpX; PRK09479 434271002023 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 434271002024 active site 434271002025 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 434271002026 Uncharacterized conserved protein [Function unknown]; Region: COG0327 434271002027 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 434271002028 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 434271002029 Walker A/P-loop; other site 434271002030 ATP binding site [chemical binding]; other site 434271002031 Q-loop/lid; other site 434271002032 ABC transporter signature motif; other site 434271002033 Walker B; other site 434271002034 D-loop; other site 434271002035 H-loop/switch region; other site 434271002036 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 434271002037 FtsX-like permease family; Region: FtsX; pfam02687 434271002038 two-component sensor protein; Provisional; Region: cpxA; PRK09470 434271002039 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 434271002040 dimerization interface [polypeptide binding]; other site 434271002041 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 434271002042 dimer interface [polypeptide binding]; other site 434271002043 phosphorylation site [posttranslational modification] 434271002044 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 434271002045 ATP binding site [chemical binding]; other site 434271002046 Mg2+ binding site [ion binding]; other site 434271002047 G-X-G motif; other site 434271002048 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 434271002049 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 434271002050 active site 434271002051 phosphorylation site [posttranslational modification] 434271002052 dimerization interface [polypeptide binding]; other site 434271002053 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 434271002054 DNA binding site [nucleotide binding] 434271002055 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 434271002056 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 434271002057 homodimer interface [polypeptide binding]; other site 434271002058 metal binding site [ion binding]; metal-binding site 434271002059 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 434271002060 homodimer interface [polypeptide binding]; other site 434271002061 active site 434271002062 putative chemical substrate binding site [chemical binding]; other site 434271002063 metal binding site [ion binding]; metal-binding site 434271002064 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 434271002065 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 434271002066 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 434271002067 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434271002068 ribosome maturation protein RimP; Reviewed; Region: PRK00092 434271002069 Sm and related proteins; Region: Sm_like; cl00259 434271002070 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 434271002071 putative oligomer interface [polypeptide binding]; other site 434271002072 putative RNA binding site [nucleotide binding]; other site 434271002073 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 434271002074 NusA N-terminal domain; Region: NusA_N; pfam08529 434271002075 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 434271002076 RNA binding site [nucleotide binding]; other site 434271002077 homodimer interface [polypeptide binding]; other site 434271002078 NusA-like KH domain; Region: KH_5; pfam13184 434271002079 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 434271002080 G-X-X-G motif; other site 434271002081 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 434271002082 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 434271002083 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 434271002084 translation initiation factor IF-2; Region: IF-2; TIGR00487 434271002085 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 434271002086 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 434271002087 G1 box; other site 434271002088 putative GEF interaction site [polypeptide binding]; other site 434271002089 GTP/Mg2+ binding site [chemical binding]; other site 434271002090 Switch I region; other site 434271002091 G2 box; other site 434271002092 G3 box; other site 434271002093 Switch II region; other site 434271002094 G4 box; other site 434271002095 G5 box; other site 434271002096 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 434271002097 Translation-initiation factor 2; Region: IF-2; pfam11987 434271002098 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 434271002099 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 434271002100 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 434271002101 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 434271002102 RNA binding site [nucleotide binding]; other site 434271002103 active site 434271002104 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 434271002105 Transglycosylase SLT domain; Region: SLT_2; pfam13406 434271002106 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 434271002107 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434271002108 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 434271002109 phosphate acetyltransferase; Reviewed; Region: PRK05632 434271002110 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 434271002111 DRTGG domain; Region: DRTGG; pfam07085 434271002112 phosphate acetyltransferase; Region: pta; TIGR00651 434271002113 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 434271002114 propionate/acetate kinase; Provisional; Region: PRK12379 434271002115 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 434271002116 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 434271002117 active site 434271002118 metal binding site [ion binding]; metal-binding site 434271002119 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 434271002120 similar to nicotinamide phosphoribosyl transferase 434271002121 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 434271002122 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 434271002123 trimer interface [polypeptide binding]; other site 434271002124 eyelet of channel; other site 434271002125 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 434271002126 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 434271002127 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 434271002128 active site 434271002129 tetramer interface; other site 434271002130 phosphomannomutase CpsG; Provisional; Region: PRK15414 434271002131 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 434271002132 active site 434271002133 substrate binding site [chemical binding]; other site 434271002134 metal binding site [ion binding]; metal-binding site 434271002135 carbon storage regulator; Provisional; Region: PRK01712 434271002136 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 434271002137 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 434271002138 motif 1; other site 434271002139 active site 434271002140 motif 2; other site 434271002141 motif 3; other site 434271002142 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 434271002143 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 434271002144 DHHA1 domain; Region: DHHA1; pfam02272 434271002145 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 434271002146 Ligand Binding Site [chemical binding]; other site 434271002147 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 434271002148 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 434271002149 ligand binding site [chemical binding]; other site 434271002150 flexible hinge region; other site 434271002151 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 434271002152 putative switch regulator; other site 434271002153 non-specific DNA interactions [nucleotide binding]; other site 434271002154 DNA binding site [nucleotide binding] 434271002155 sequence specific DNA binding site [nucleotide binding]; other site 434271002156 putative cAMP binding site [chemical binding]; other site 434271002157 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 434271002158 stringent starvation protein A; Provisional; Region: sspA; PRK09481 434271002159 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 434271002160 C-terminal domain interface [polypeptide binding]; other site 434271002161 putative GSH binding site (G-site) [chemical binding]; other site 434271002162 dimer interface [polypeptide binding]; other site 434271002163 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 434271002164 dimer interface [polypeptide binding]; other site 434271002165 N-terminal domain interface [polypeptide binding]; other site 434271002166 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 434271002167 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 434271002168 active site 434271002169 homotetramer interface [polypeptide binding]; other site 434271002170 homodimer interface [polypeptide binding]; other site 434271002171 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 434271002172 ATP-grasp domain; Region: ATP-grasp; pfam02222 434271002173 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 434271002174 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 434271002175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271002176 homodimer interface [polypeptide binding]; other site 434271002177 catalytic residue [active] 434271002178 proline aminopeptidase P II; Provisional; Region: PRK10879 434271002179 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 434271002180 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 434271002181 active site 434271002182 Restriction endonuclease [Defense mechanisms]; Region: COG3587 434271002183 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 434271002184 ATP binding site [chemical binding]; other site 434271002185 putative Mg++ binding site [ion binding]; other site 434271002186 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 434271002187 DNA methylase; Region: N6_N4_Mtase; cl17433 434271002188 DNA methylase; Region: N6_N4_Mtase; pfam01555 434271002189 DNA methylase; Region: N6_N4_Mtase; pfam01555 434271002190 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 434271002191 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 434271002192 putative active site [active] 434271002193 catalytic site [active] 434271002194 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 434271002195 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 434271002196 ATP binding site [chemical binding]; other site 434271002197 putative Mg++ binding site [ion binding]; other site 434271002198 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 434271002199 nucleotide binding region [chemical binding]; other site 434271002200 ATP-binding site [chemical binding]; other site 434271002201 AAA domain; Region: AAA_14; pfam13173 434271002202 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434271002203 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 434271002204 oligomeric interface; other site 434271002205 putative active site [active] 434271002206 homodimer interface [polypeptide binding]; other site 434271002207 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 434271002208 excinuclease ABC subunit B; Provisional; Region: PRK05298 434271002209 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 434271002210 ATP binding site [chemical binding]; other site 434271002211 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 434271002212 nucleotide binding region [chemical binding]; other site 434271002213 ATP-binding site [chemical binding]; other site 434271002214 Ultra-violet resistance protein B; Region: UvrB; pfam12344 434271002215 Imelysin; Region: Peptidase_M75; pfam09375 434271002216 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 434271002217 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 434271002218 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 434271002219 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 434271002220 active site 434271002221 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 434271002222 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 434271002223 putative active site [active] 434271002224 exonuclease I; Provisional; Region: sbcB; PRK11779 434271002225 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 434271002226 active site 434271002227 catalytic site [active] 434271002228 substrate binding site [chemical binding]; other site 434271002229 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 434271002230 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 434271002231 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 434271002232 putative ion selectivity filter; other site 434271002233 putative pore gating glutamate residue; other site 434271002234 putative H+/Cl- coupling transport residue; other site 434271002235 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 434271002236 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 434271002237 putative dimer interface [polypeptide binding]; other site 434271002238 putative anticodon binding site; other site 434271002239 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 434271002240 homodimer interface [polypeptide binding]; other site 434271002241 motif 1; other site 434271002242 motif 2; other site 434271002243 active site 434271002244 motif 3; other site 434271002245 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 434271002246 FeS/SAM binding site; other site 434271002247 Radical SAM superfamily; Region: Radical_SAM; pfam04055 434271002248 elongation factor P; Validated; Region: PRK00529 434271002249 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 434271002250 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 434271002251 RNA binding site [nucleotide binding]; other site 434271002252 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 434271002253 RNA binding site [nucleotide binding]; other site 434271002254 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 434271002255 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 434271002256 active site 434271002257 HIGH motif; other site 434271002258 nucleotide binding site [chemical binding]; other site 434271002259 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 434271002260 KMSKS motif; other site 434271002261 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 434271002262 putative transporter; Provisional; Region: PRK10504 434271002263 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 434271002264 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 434271002265 lytic murein transglycosylase; Provisional; Region: PRK11619 434271002266 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 434271002267 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434271002268 catalytic residue [active] 434271002269 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434271002270 active site 434271002271 cystathionine gamma-synthase; Reviewed; Region: PRK08247 434271002272 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 434271002273 homodimer interface [polypeptide binding]; other site 434271002274 substrate-cofactor binding pocket; other site 434271002275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271002276 catalytic residue [active] 434271002277 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 434271002278 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 434271002279 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 434271002280 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 434271002281 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 434271002282 Protein of unknown function (DUF423); Region: DUF423; cl01008 434271002283 D-lactate dehydrogenase; Provisional; Region: PRK11183 434271002284 FAD binding domain; Region: FAD_binding_4; pfam01565 434271002285 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 434271002286 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 434271002287 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 434271002288 molybdopterin cofactor binding site [chemical binding]; other site 434271002289 substrate binding site [chemical binding]; other site 434271002290 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 434271002291 molybdopterin cofactor binding site; other site 434271002292 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 434271002293 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 434271002294 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 434271002295 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 434271002296 FeS/SAM binding site; other site 434271002297 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 434271002298 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 434271002299 trimer interface [polypeptide binding]; other site 434271002300 dimer interface [polypeptide binding]; other site 434271002301 putative active site [active] 434271002302 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 434271002303 MoaE interaction surface [polypeptide binding]; other site 434271002304 MoeB interaction surface [polypeptide binding]; other site 434271002305 thiocarboxylated glycine; other site 434271002306 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 434271002307 MoaE homodimer interface [polypeptide binding]; other site 434271002308 MoaD interaction [polypeptide binding]; other site 434271002309 active site residues [active] 434271002310 metal-binding heat shock protein; Provisional; Region: PRK00016 434271002311 Helicase; Region: Helicase_RecD; pfam05127 434271002312 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 434271002313 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 434271002314 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 434271002315 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 434271002316 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 434271002317 active site 434271002318 interdomain interaction site; other site 434271002319 putative metal-binding site [ion binding]; other site 434271002320 nucleotide binding site [chemical binding]; other site 434271002321 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 434271002322 domain I; other site 434271002323 DNA binding groove [nucleotide binding] 434271002324 phosphate binding site [ion binding]; other site 434271002325 domain II; other site 434271002326 domain III; other site 434271002327 nucleotide binding site [chemical binding]; other site 434271002328 catalytic site [active] 434271002329 domain IV; other site 434271002330 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 434271002331 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 434271002332 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 434271002333 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 434271002334 Transcriptional regulator [Transcription]; Region: LysR; COG0583 434271002335 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434271002336 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 434271002337 putative effector binding pocket; other site 434271002338 dimerization interface [polypeptide binding]; other site 434271002339 N-acetylglutamate synthase; Validated; Region: PRK05279 434271002340 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 434271002341 putative feedback inhibition sensing region; other site 434271002342 putative nucleotide binding site [chemical binding]; other site 434271002343 putative substrate binding site [chemical binding]; other site 434271002344 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434271002345 Coenzyme A binding pocket [chemical binding]; other site 434271002346 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 434271002347 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 434271002348 hinge; other site 434271002349 active site 434271002350 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 434271002351 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 434271002352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271002353 homodimer interface [polypeptide binding]; other site 434271002354 catalytic residue [active] 434271002355 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 434271002356 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 434271002357 homodimer interface [polypeptide binding]; other site 434271002358 substrate-cofactor binding pocket; other site 434271002359 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271002360 catalytic residue [active] 434271002361 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 434271002362 homodimer interface [polypeptide binding]; other site 434271002363 substrate-cofactor binding pocket; other site 434271002364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271002365 catalytic residue [active] 434271002366 similar to superfamily II DNA/RNA helicase 434271002367 DEAD-like helicases superfamily; Region: DEXDc; smart00487 434271002368 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 434271002369 ATP binding site [chemical binding]; other site 434271002370 putative Mg++ binding site [ion binding]; other site 434271002371 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 434271002372 DNA methylase; Region: N6_N4_Mtase; cl17433 434271002373 DNA methylase; Region: N6_N4_Mtase; pfam01555 434271002374 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 434271002375 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 434271002376 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 434271002377 putative active site [active] 434271002378 Domain of unknown function (DUF386); Region: DUF386; pfam04074 434271002379 exopolyphosphatase; Provisional; Region: PRK10854 434271002380 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 434271002381 hypothetical protein; Provisional; Region: PRK05423 434271002382 similar to aspartokinase 434271002383 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 434271002384 ATP cone domain; Region: ATP-cone; pfam03477 434271002385 YcgL domain; Region: YcgL; pfam05166 434271002386 replicative DNA helicase; Validated; Region: PRK06904 434271002387 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 434271002388 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 434271002389 Walker A motif; other site 434271002390 ATP binding site [chemical binding]; other site 434271002391 Walker B motif; other site 434271002392 DNA binding loops [nucleotide binding] 434271002393 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 434271002394 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 434271002395 putative ligand binding residues [chemical binding]; other site 434271002396 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 434271002397 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 434271002398 ABC-ATPase subunit interface; other site 434271002399 dimer interface [polypeptide binding]; other site 434271002400 putative PBP binding regions; other site 434271002401 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 434271002402 ABC-ATPase subunit interface; other site 434271002403 dimer interface [polypeptide binding]; other site 434271002404 putative PBP binding regions; other site 434271002405 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 434271002406 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 434271002407 Walker A/P-loop; other site 434271002408 ATP binding site [chemical binding]; other site 434271002409 Q-loop/lid; other site 434271002410 ABC transporter signature motif; other site 434271002411 Walker B; other site 434271002412 D-loop; other site 434271002413 H-loop/switch region; other site 434271002414 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 434271002415 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 434271002416 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 434271002417 SH3 domain-containing protein; Provisional; Region: PRK10884 434271002418 Bacterial SH3 domain homologues; Region: SH3b; smart00287 434271002419 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 434271002420 CPxP motif; other site 434271002421 Hemerythrin-like domain; Region: Hr-like; cd12108 434271002422 Fe binding site [ion binding]; other site 434271002423 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 434271002424 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 434271002425 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 434271002426 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 434271002427 DNA-binding site [nucleotide binding]; DNA binding site 434271002428 RNA-binding motif; other site 434271002429 similar to probable carbonic anhydrase 434271002430 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 434271002431 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 434271002432 PYR/PP interface [polypeptide binding]; other site 434271002433 dimer interface [polypeptide binding]; other site 434271002434 TPP binding site [chemical binding]; other site 434271002435 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 434271002436 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 434271002437 TPP-binding site [chemical binding]; other site 434271002438 dimer interface [polypeptide binding]; other site 434271002439 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 434271002440 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 434271002441 putative valine binding site [chemical binding]; other site 434271002442 dimer interface [polypeptide binding]; other site 434271002443 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 434271002444 peptidase PmbA; Provisional; Region: PRK11040 434271002445 hypothetical protein; Provisional; Region: PRK05255 434271002446 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 434271002447 aromatic acid decarboxylase; Validated; Region: PRK05920 434271002448 Flavoprotein; Region: Flavoprotein; pfam02441 434271002449 Protein of unknown function (DUF554); Region: DUF554; pfam04474 434271002450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 434271002451 translation initiation factor Sui1; Validated; Region: PRK06824 434271002452 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 434271002453 putative rRNA binding site [nucleotide binding]; other site 434271002454 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 434271002455 active site 434271002456 dimer interface [polypeptide binding]; other site 434271002457 tetratricopeptide repeat protein; Provisional; Region: PRK11788 434271002458 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 434271002459 binding surface 434271002460 TPR motif; other site 434271002461 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 434271002462 TPR motif; other site 434271002463 binding surface 434271002464 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 434271002465 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 434271002466 IHF dimer interface [polypeptide binding]; other site 434271002467 IHF - DNA interface [nucleotide binding]; other site 434271002468 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 434271002469 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 434271002470 RNA binding site [nucleotide binding]; other site 434271002471 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 434271002472 RNA binding site [nucleotide binding]; other site 434271002473 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 434271002474 RNA binding site [nucleotide binding]; other site 434271002475 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 434271002476 RNA binding site [nucleotide binding]; other site 434271002477 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 434271002478 RNA binding site [nucleotide binding]; other site 434271002479 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 434271002480 RNA binding site [nucleotide binding]; other site 434271002481 cytidylate kinase; Provisional; Region: cmk; PRK00023 434271002482 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 434271002483 CMP-binding site; other site 434271002484 The sites determining sugar specificity; other site 434271002485 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 434271002486 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 434271002487 DNA topoisomerase III; Provisional; Region: PRK07726 434271002488 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 434271002489 active site 434271002490 putative interdomain interaction site [polypeptide binding]; other site 434271002491 putative metal-binding site [ion binding]; other site 434271002492 putative nucleotide binding site [chemical binding]; other site 434271002493 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 434271002494 domain I; other site 434271002495 DNA binding groove [nucleotide binding] 434271002496 phosphate binding site [ion binding]; other site 434271002497 domain II; other site 434271002498 domain III; other site 434271002499 nucleotide binding site [chemical binding]; other site 434271002500 catalytic site [active] 434271002501 domain IV; other site 434271002502 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 434271002503 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 434271002504 active site 434271002505 dimer interface [polypeptide binding]; other site 434271002506 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 434271002507 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 434271002508 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 434271002509 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 434271002510 Tetramer interface [polypeptide binding]; other site 434271002511 active site 434271002512 FMN-binding site [chemical binding]; other site 434271002513 hypothetical protein; Provisional; Region: PRK11281 434271002514 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 434271002515 Mechanosensitive ion channel; Region: MS_channel; pfam00924 434271002516 hypothetical protein; Provisional; Region: PRK11281 434271002517 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 434271002518 Mechanosensitive ion channel; Region: MS_channel; pfam00924 434271002519 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 434271002520 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 434271002521 acyl-activating enzyme (AAE) consensus motif; other site 434271002522 putative AMP binding site [chemical binding]; other site 434271002523 putative active site [active] 434271002524 putative CoA binding site [chemical binding]; other site 434271002525 replication initiation regulator SeqA; Provisional; Region: PRK11187 434271002526 acyl-CoA esterase; Provisional; Region: PRK10673 434271002527 PGAP1-like protein; Region: PGAP1; pfam07819 434271002528 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 434271002529 S-adenosylmethionine binding site [chemical binding]; other site 434271002530 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 434271002531 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 434271002532 NAD binding site [chemical binding]; other site 434271002533 homotetramer interface [polypeptide binding]; other site 434271002534 homodimer interface [polypeptide binding]; other site 434271002535 substrate binding site [chemical binding]; other site 434271002536 active site 434271002537 Protein of unknown function (DUF497); Region: DUF497; cl01108 434271002538 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 434271002539 exoribonuclease II; Provisional; Region: PRK05054 434271002540 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 434271002541 RNB domain; Region: RNB; pfam00773 434271002542 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 434271002543 RNA binding site [nucleotide binding]; other site 434271002544 LrgA family; Region: LrgA; cl00608 434271002545 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 434271002546 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 434271002547 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 434271002548 active site 434271002549 metal binding site [ion binding]; metal-binding site 434271002550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 434271002551 Methyltransferase domain; Region: Methyltransf_31; pfam13847 434271002552 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 434271002553 S-adenosylmethionine binding site [chemical binding]; other site 434271002554 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 434271002555 Domain of unknown function DUF20; Region: UPF0118; pfam01594 434271002556 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 434271002557 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 434271002558 phosphate binding site [ion binding]; other site 434271002559 putative substrate binding pocket [chemical binding]; other site 434271002560 dimer interface [polypeptide binding]; other site 434271002561 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 434271002562 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 434271002563 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 434271002564 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 434271002565 Competence protein; Region: Competence; pfam03772 434271002566 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 434271002567 serine/threonine transporter SstT; Provisional; Region: PRK13628 434271002568 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 434271002569 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 434271002570 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 434271002571 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 434271002572 active site 434271002573 metal binding site [ion binding]; metal-binding site 434271002574 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 434271002575 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 434271002576 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 434271002577 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 434271002578 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 434271002579 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 434271002580 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 434271002581 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 434271002582 E3 interaction surface; other site 434271002583 lipoyl attachment site [posttranslational modification]; other site 434271002584 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 434271002585 E3 interaction surface; other site 434271002586 lipoyl attachment site [posttranslational modification]; other site 434271002587 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 434271002588 E3 interaction surface; other site 434271002589 lipoyl attachment site [posttranslational modification]; other site 434271002590 e3 binding domain; Region: E3_binding; pfam02817 434271002591 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 434271002592 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 434271002593 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 434271002594 dimer interface [polypeptide binding]; other site 434271002595 TPP-binding site [chemical binding]; other site 434271002596 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 434271002597 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 434271002598 quinone interaction residues [chemical binding]; other site 434271002599 active site 434271002600 catalytic residues [active] 434271002601 FMN binding site [chemical binding]; other site 434271002602 substrate binding site [chemical binding]; other site 434271002603 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 434271002604 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 434271002605 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434271002606 active site 434271002607 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 434271002608 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 434271002609 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 434271002610 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 434271002611 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 434271002612 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 434271002613 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 434271002614 Walker A/P-loop; other site 434271002615 ATP binding site [chemical binding]; other site 434271002616 Q-loop/lid; other site 434271002617 ABC transporter signature motif; other site 434271002618 Walker B; other site 434271002619 D-loop; other site 434271002620 H-loop/switch region; other site 434271002621 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 434271002622 LrgA family; Region: LrgA; cl00608 434271002623 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 434271002624 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 434271002625 ATP binding site [chemical binding]; other site 434271002626 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 434271002627 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 434271002628 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 434271002629 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 434271002630 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 434271002631 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 434271002632 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 434271002633 dimer interface [polypeptide binding]; other site 434271002634 ssDNA binding site [nucleotide binding]; other site 434271002635 tetramer (dimer of dimers) interface [polypeptide binding]; other site 434271002636 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 434271002637 GIY-YIG motif/motif A; other site 434271002638 putative active site [active] 434271002639 putative metal binding site [ion binding]; other site 434271002640 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271002641 Walker A/P-loop; other site 434271002642 ATP binding site [chemical binding]; other site 434271002643 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 434271002644 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 434271002645 Archaeal ATPase; Region: Arch_ATPase; pfam01637 434271002646 Walker A motif; other site 434271002647 ATP binding site [chemical binding]; other site 434271002648 Walker B motif; other site 434271002649 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 434271002650 Transcriptional regulator [Transcription]; Region: LysR; COG0583 434271002651 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434271002652 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 434271002653 dimerization interface [polypeptide binding]; other site 434271002654 putative effector binding pocket; other site 434271002655 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 434271002656 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 434271002657 FMN binding site [chemical binding]; other site 434271002658 substrate binding site [chemical binding]; other site 434271002659 putative catalytic residue [active] 434271002660 similar to transmembrane transport protein-permase 434271002661 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 434271002662 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 434271002663 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 434271002664 Walker A/P-loop; other site 434271002665 ATP binding site [chemical binding]; other site 434271002666 Q-loop/lid; other site 434271002667 ABC transporter signature motif; other site 434271002668 Walker B; other site 434271002669 D-loop; other site 434271002670 H-loop/switch region; other site 434271002671 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 434271002672 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 434271002673 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 434271002674 putative PBP binding loops; other site 434271002675 dimer interface [polypeptide binding]; other site 434271002676 ABC-ATPase subunit interface; other site 434271002677 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 434271002678 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 434271002679 putative PBP binding loops; other site 434271002680 dimer interface [polypeptide binding]; other site 434271002681 ABC-ATPase subunit interface; other site 434271002682 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 434271002683 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 434271002684 peptide binding site [polypeptide binding]; other site 434271002685 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 434271002686 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 434271002687 Walker A motif; other site 434271002688 ATP binding site [chemical binding]; other site 434271002689 Walker B motif; other site 434271002690 arginine finger; other site 434271002691 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 434271002692 dimer interface [polypeptide binding]; other site 434271002693 active site 434271002694 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 434271002695 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 434271002696 active site 434271002697 substrate-binding site [chemical binding]; other site 434271002698 metal-binding site [ion binding] 434271002699 ATP binding site [chemical binding]; other site 434271002700 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 434271002701 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 434271002702 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 434271002703 substrate binding site; other site 434271002704 dimer interface; other site 434271002705 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 434271002706 homotrimer interaction site [polypeptide binding]; other site 434271002707 zinc binding site [ion binding]; other site 434271002708 CDP-binding sites; other site 434271002709 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 434271002710 Sulfatase; Region: Sulfatase; pfam00884 434271002711 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 434271002712 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 434271002713 MOSC domain; Region: MOSC; pfam03473 434271002714 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 434271002715 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 434271002716 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 434271002717 substrate binding pocket [chemical binding]; other site 434271002718 chain length determination region; other site 434271002719 substrate-Mg2+ binding site; other site 434271002720 catalytic residues [active] 434271002721 aspartate-rich region 1; other site 434271002722 active site lid residues [active] 434271002723 aspartate-rich region 2; other site 434271002724 Protein of unknown function, DUF486; Region: DUF486; cl01236 434271002725 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 434271002726 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 434271002727 dimer interface [polypeptide binding]; other site 434271002728 putative anticodon binding site; other site 434271002729 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 434271002730 motif 1; other site 434271002731 active site 434271002732 motif 2; other site 434271002733 motif 3; other site 434271002734 ribonuclease G; Provisional; Region: PRK11712 434271002735 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 434271002736 homodimer interface [polypeptide binding]; other site 434271002737 oligonucleotide binding site [chemical binding]; other site 434271002738 RNB domain; Region: RNB; pfam00773 434271002739 uncharacterized domain; Region: TIGR00702 434271002740 YcaO-like family; Region: YcaO; pfam02624 434271002741 Restriction endonuclease [Defense mechanisms]; Region: COG3587 434271002742 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 434271002743 ATP binding site [chemical binding]; other site 434271002744 putative Mg++ binding site [ion binding]; other site 434271002745 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 434271002746 DNA methylase; Region: N6_N4_Mtase; cl17433 434271002747 DNA methylase; Region: N6_N4_Mtase; pfam01555 434271002748 DNA methylase; Region: N6_N4_Mtase; cl17433 434271002749 Methyltransferase domain; Region: Methyltransf_23; pfam13489 434271002750 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 434271002751 S-adenosylmethionine binding site [chemical binding]; other site 434271002752 murein transglycosylase A; Provisional; Region: mltA; PRK11162 434271002753 MltA specific insert domain; Region: MltA; smart00925 434271002754 3D domain; Region: 3D; pfam06725 434271002755 similar to exonuclease VII, large subunit 434271002756 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 434271002757 active site 434271002758 homotetramer interface [polypeptide binding]; other site 434271002759 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 434271002760 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 434271002761 DNA binding site [nucleotide binding] 434271002762 domain linker motif; other site 434271002763 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 434271002764 dimerization interface [polypeptide binding]; other site 434271002765 ligand binding site [chemical binding]; other site 434271002766 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 434271002767 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 434271002768 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 434271002769 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 434271002770 Mg2+ binding site [ion binding]; other site 434271002771 G-X-G motif; other site 434271002772 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 434271002773 anchoring element; other site 434271002774 dimer interface [polypeptide binding]; other site 434271002775 ATP binding site [chemical binding]; other site 434271002776 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 434271002777 active site 434271002778 putative metal-binding site [ion binding]; other site 434271002779 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 434271002780 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 434271002781 UbiA prenyltransferase family; Region: UbiA; pfam01040 434271002782 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 434271002783 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 434271002784 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 434271002785 adenylosuccinate lyase; Provisional; Region: PRK09285 434271002786 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 434271002787 tetramer interface [polypeptide binding]; other site 434271002788 active site 434271002789 putative lysogenization regulator; Reviewed; Region: PRK00218 434271002790 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 434271002791 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 434271002792 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 434271002793 Walker A/P-loop; other site 434271002794 ATP binding site [chemical binding]; other site 434271002795 Q-loop/lid; other site 434271002796 ABC transporter signature motif; other site 434271002797 Walker B; other site 434271002798 D-loop; other site 434271002799 H-loop/switch region; other site 434271002800 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 434271002801 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 434271002802 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271002803 Walker A/P-loop; other site 434271002804 ATP binding site [chemical binding]; other site 434271002805 Q-loop/lid; other site 434271002806 ABC transporter signature motif; other site 434271002807 Walker B; other site 434271002808 D-loop; other site 434271002809 H-loop/switch region; other site 434271002810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 434271002811 Family of unknown function (DUF490); Region: DUF490; pfam04357 434271002812 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 434271002813 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 434271002814 Surface antigen; Region: Bac_surface_Ag; pfam01103 434271002815 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 434271002816 putative active site [active] 434271002817 NodB motif; other site 434271002818 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 434271002819 Bovine leukaemia virus receptor (BLVR); Region: BLVR; pfam06375 434271002820 Peptidase family M23; Region: Peptidase_M23; pfam01551 434271002821 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 434271002822 catalytic core [active] 434271002823 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 434271002824 Lysine efflux permease [General function prediction only]; Region: COG1279 434271002825 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 434271002826 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 434271002827 Sugar specificity; other site 434271002828 Pyrimidine base specificity; other site 434271002829 ATP-binding site [chemical binding]; other site 434271002830 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 434271002831 trimer interface [polypeptide binding]; other site 434271002832 active site 434271002833 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 434271002834 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 434271002835 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 434271002836 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 434271002837 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 434271002838 Walker A/P-loop; other site 434271002839 ATP binding site [chemical binding]; other site 434271002840 Q-loop/lid; other site 434271002841 ABC transporter signature motif; other site 434271002842 Walker B; other site 434271002843 D-loop; other site 434271002844 H-loop/switch region; other site 434271002845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271002846 Walker A/P-loop; other site 434271002847 ATP binding site [chemical binding]; other site 434271002848 Q-loop/lid; other site 434271002849 ABC transporter signature motif; other site 434271002850 Walker B; other site 434271002851 D-loop; other site 434271002852 H-loop/switch region; other site 434271002853 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 434271002854 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 434271002855 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 434271002856 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 434271002857 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 434271002858 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 434271002859 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 434271002860 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 434271002861 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 434271002862 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 434271002863 ligand binding site [chemical binding]; other site 434271002864 homodimer interface [polypeptide binding]; other site 434271002865 NAD(P) binding site [chemical binding]; other site 434271002866 trimer interface B [polypeptide binding]; other site 434271002867 trimer interface A [polypeptide binding]; other site 434271002868 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 434271002869 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 434271002870 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 434271002871 Nucleoid-associated protein [General function prediction only]; Region: COG3081 434271002872 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 434271002873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 434271002874 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 434271002875 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 434271002876 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 434271002877 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 434271002878 active site 434271002879 motif I; other site 434271002880 motif II; other site 434271002881 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 434271002882 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 434271002883 catalytic triad [active] 434271002884 HemN family oxidoreductase; Provisional; Region: PRK05660 434271002885 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 434271002886 FeS/SAM binding site; other site 434271002887 HemN C-terminal domain; Region: HemN_C; pfam06969 434271002888 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 434271002889 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 434271002890 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 434271002891 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 434271002892 dimer interface [polypeptide binding]; other site 434271002893 conserved gate region; other site 434271002894 ABC-ATPase subunit interface; other site 434271002895 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 434271002896 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 434271002897 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 434271002898 dimer interface [polypeptide binding]; other site 434271002899 conserved gate region; other site 434271002900 putative PBP binding loops; other site 434271002901 ABC-ATPase subunit interface; other site 434271002902 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 434271002903 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 434271002904 Walker A/P-loop; other site 434271002905 ATP binding site [chemical binding]; other site 434271002906 Q-loop/lid; other site 434271002907 ABC transporter signature motif; other site 434271002908 Walker B; other site 434271002909 D-loop; other site 434271002910 H-loop/switch region; other site 434271002911 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 434271002912 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 434271002913 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 434271002914 Walker A/P-loop; other site 434271002915 ATP binding site [chemical binding]; other site 434271002916 Q-loop/lid; other site 434271002917 ABC transporter signature motif; other site 434271002918 Walker B; other site 434271002919 D-loop; other site 434271002920 H-loop/switch region; other site 434271002921 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 434271002922 L-aspartate oxidase; Provisional; Region: PRK06175 434271002923 L-aspartate oxidase; Region: nadB; TIGR00551 434271002924 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 434271002925 substrate binding site [chemical binding]; other site 434271002926 THF binding site; other site 434271002927 zinc-binding site [ion binding]; other site 434271002928 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 434271002929 FAD binding site [chemical binding]; other site 434271002930 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 434271002931 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 434271002932 peptide binding site [polypeptide binding]; other site 434271002933 serine transporter; Region: stp; TIGR00814 434271002934 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 434271002935 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 434271002936 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 434271002937 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 434271002938 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 434271002939 Uncharacterized conserved protein [Function unknown]; Region: COG4121 434271002940 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 434271002941 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 434271002942 active site 434271002943 ribulose/triose binding site [chemical binding]; other site 434271002944 phosphate binding site [ion binding]; other site 434271002945 substrate (anthranilate) binding pocket [chemical binding]; other site 434271002946 product (indole) binding pocket [chemical binding]; other site 434271002947 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 434271002948 active site 434271002949 mobile mystery protein B; Region: mob_myst_B; TIGR02613 434271002950 Fic/DOC family; Region: Fic; pfam02661 434271002951 Fic/DOC family; Region: Fic; cl00960 434271002952 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 434271002953 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 434271002954 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 434271002955 probable active site [active] 434271002956 hypothetical protein; Provisional; Region: PRK05114 434271002957 Uncharacterized conserved protein [Function unknown]; Region: COG3025 434271002958 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 434271002959 putative active site [active] 434271002960 putative metal binding residues [ion binding]; other site 434271002961 signature motif; other site 434271002962 putative triphosphate binding site [ion binding]; other site 434271002963 YcjX-like family, DUF463; Region: DUF463; pfam04317 434271002964 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 434271002965 SmpB-tmRNA interface; other site 434271002966 seryl-tRNA synthetase; Provisional; Region: PRK05431 434271002967 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 434271002968 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 434271002969 dimer interface [polypeptide binding]; other site 434271002970 active site 434271002971 motif 1; other site 434271002972 motif 2; other site 434271002973 motif 3; other site 434271002974 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 434271002975 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 434271002976 putative metal binding site [ion binding]; other site 434271002977 dimer interface [polypeptide binding]; other site 434271002978 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 434271002979 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 434271002980 active site pocket [active] 434271002981 oxyanion hole [active] 434271002982 catalytic triad [active] 434271002983 active site nucleophile [active] 434271002984 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 434271002985 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 434271002986 HIGH motif; other site 434271002987 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 434271002988 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 434271002989 active site 434271002990 KMSKS motif; other site 434271002991 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 434271002992 tRNA binding surface [nucleotide binding]; other site 434271002993 Lipopolysaccharide-assembly; Region: LptE; cl01125 434271002994 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 434271002995 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 434271002996 Domain of unknown function (DUF329); Region: DUF329; pfam03884 434271002997 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 434271002998 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 434271002999 CoA-binding site [chemical binding]; other site 434271003000 ATP-binding [chemical binding]; other site 434271003001 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 434271003002 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 434271003003 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 434271003004 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 434271003005 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 434271003006 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 434271003007 Walker A motif; other site 434271003008 ATP binding site [chemical binding]; other site 434271003009 Walker B motif; other site 434271003010 putative major pilin subunit; Provisional; Region: PRK10574 434271003011 DNA repair protein RadA; Provisional; Region: PRK11823 434271003012 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 434271003013 Walker A motif/ATP binding site; other site 434271003014 ATP binding site [chemical binding]; other site 434271003015 Walker B motif; other site 434271003016 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 434271003017 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 434271003018 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 434271003019 folate binding site [chemical binding]; other site 434271003020 NADP+ binding site [chemical binding]; other site 434271003021 gamma-glutamyl kinase; Provisional; Region: PRK05429 434271003022 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 434271003023 nucleotide binding site [chemical binding]; other site 434271003024 homotetrameric interface [polypeptide binding]; other site 434271003025 putative phosphate binding site [ion binding]; other site 434271003026 putative allosteric binding site; other site 434271003027 PUA domain; Region: PUA; pfam01472 434271003028 hypothetical protein; Provisional; Region: PRK10621 434271003029 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 434271003030 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 434271003031 endonuclease III; Region: ENDO3c; smart00478 434271003032 minor groove reading motif; other site 434271003033 helix-hairpin-helix signature motif; other site 434271003034 substrate binding pocket [chemical binding]; other site 434271003035 active site 434271003036 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 434271003037 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 434271003038 dimer interface [polypeptide binding]; other site 434271003039 active site 434271003040 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 434271003041 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 434271003042 substrate binding site [chemical binding]; other site 434271003043 trimer interface [polypeptide binding]; other site 434271003044 oxyanion hole (OAH) forming residues; other site 434271003045 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 434271003046 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 434271003047 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 434271003048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 434271003049 Membrane transport protein; Region: Mem_trans; cl09117 434271003050 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 434271003051 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 434271003052 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 434271003053 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 434271003054 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 434271003055 molybdopterin cofactor binding site; other site 434271003056 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 434271003057 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 434271003058 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 434271003059 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 434271003060 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 434271003061 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 434271003062 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 434271003063 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 434271003064 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 434271003065 homodimer interface [polypeptide binding]; other site 434271003066 NADP binding site [chemical binding]; other site 434271003067 substrate binding site [chemical binding]; other site 434271003068 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 434271003069 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 434271003070 putative substrate translocation pore; other site 434271003071 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 434271003072 dihydrodipicolinate synthase; Region: dapA; TIGR00674 434271003073 dimer interface [polypeptide binding]; other site 434271003074 active site 434271003075 catalytic residue [active] 434271003076 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 434271003077 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 434271003078 putative acyl-acceptor binding pocket; other site 434271003079 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 434271003080 30S subunit binding site; other site 434271003081 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 434271003082 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 434271003083 dimerization interface 3.5A [polypeptide binding]; other site 434271003084 active site 434271003085 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 434271003086 homodecamer interface [polypeptide binding]; other site 434271003087 GTP cyclohydrolase I; Provisional; Region: PLN03044 434271003088 active site 434271003089 putative catalytic site residues [active] 434271003090 zinc binding site [ion binding]; other site 434271003091 GTP-CH-I/GFRP interaction surface; other site 434271003092 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 434271003093 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 434271003094 active site 434271003095 ATP binding site [chemical binding]; other site 434271003096 Uncharacterized conserved protein [Function unknown]; Region: COG4925 434271003097 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 434271003098 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 434271003099 trimer interface [polypeptide binding]; other site 434271003100 active site 434271003101 substrate binding site [chemical binding]; other site 434271003102 CoA binding site [chemical binding]; other site 434271003103 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 434271003104 Transcriptional regulator [Transcription]; Region: LysR; COG0583 434271003105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434271003106 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 434271003107 putative effector binding pocket; other site 434271003108 putative dimerization interface [polypeptide binding]; other site 434271003109 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 434271003110 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 434271003111 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 434271003112 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 434271003113 dimer interface [polypeptide binding]; other site 434271003114 conserved gate region; other site 434271003115 ABC-ATPase subunit interface; other site 434271003116 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 434271003117 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 434271003118 Walker A/P-loop; other site 434271003119 ATP binding site [chemical binding]; other site 434271003120 Q-loop/lid; other site 434271003121 ABC transporter signature motif; other site 434271003122 Walker B; other site 434271003123 D-loop; other site 434271003124 H-loop/switch region; other site 434271003125 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 434271003126 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 434271003127 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 434271003128 active site 434271003129 HIGH motif; other site 434271003130 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 434271003131 KMSKS motif; other site 434271003132 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 434271003133 tRNA binding surface [nucleotide binding]; other site 434271003134 anticodon binding site; other site 434271003135 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 434271003136 substrate binding site [chemical binding]; other site 434271003137 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 434271003138 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 434271003139 active site 434271003140 NTP binding site [chemical binding]; other site 434271003141 metal binding triad [ion binding]; metal-binding site 434271003142 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 434271003143 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 434271003144 Zn2+ binding site [ion binding]; other site 434271003145 Mg2+ binding site [ion binding]; other site 434271003146 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 434271003147 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271003148 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271003149 putative transposase OrfB; Reviewed; Region: PHA02517 434271003150 HTH-like domain; Region: HTH_21; pfam13276 434271003151 Integrase core domain; Region: rve; pfam00665 434271003152 Integrase core domain; Region: rve_2; pfam13333 434271003153 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 434271003154 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 434271003155 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 434271003156 Tetratricopeptide repeat; Region: TPR_16; pfam13432 434271003157 Protein of unknown function (DUF560); Region: DUF560; pfam04575 434271003158 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 434271003159 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 434271003160 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 434271003161 catalytic loop [active] 434271003162 iron binding site [ion binding]; other site 434271003163 chaperone protein HscA; Provisional; Region: hscA; PRK05183 434271003164 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 434271003165 nucleotide binding site [chemical binding]; other site 434271003166 putative NEF/HSP70 interaction site [polypeptide binding]; other site 434271003167 SBD interface [polypeptide binding]; other site 434271003168 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 434271003169 Protein of unknown function, DUF606; Region: DUF606; pfam04657 434271003170 co-chaperone HscB; Provisional; Region: hscB; PRK01773 434271003171 DnaJ domain; Region: DnaJ; pfam00226 434271003172 HSP70 interaction site [polypeptide binding]; other site 434271003173 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 434271003174 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 434271003175 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 434271003176 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 434271003177 trimerization site [polypeptide binding]; other site 434271003178 active site 434271003179 cysteine desulfurase; Provisional; Region: PRK14012 434271003180 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 434271003181 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434271003182 catalytic residue [active] 434271003183 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 434271003184 Rrf2 family protein; Region: rrf2_super; TIGR00738 434271003185 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 434271003186 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 434271003187 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 434271003188 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 434271003189 DNA binding site [nucleotide binding] 434271003190 active site 434271003191 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 434271003192 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 434271003193 dimer interface [polypeptide binding]; other site 434271003194 phosphorylation site [posttranslational modification] 434271003195 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 434271003196 ATP binding site [chemical binding]; other site 434271003197 Mg2+ binding site [ion binding]; other site 434271003198 G-X-G motif; other site 434271003199 Response regulator receiver domain; Region: Response_reg; pfam00072 434271003200 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 434271003201 active site 434271003202 phosphorylation site [posttranslational modification] 434271003203 intermolecular recognition site; other site 434271003204 dimerization interface [polypeptide binding]; other site 434271003205 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 434271003206 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 434271003207 hypothetical protein; Provisional; Region: PRK04946 434271003208 Smr domain; Region: Smr; pfam01713 434271003209 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 434271003210 AAA domain; Region: AAA_26; pfam13500 434271003211 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 434271003212 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 434271003213 S-adenosylmethionine binding site [chemical binding]; other site 434271003214 Protein of unknown function (DUF452); Region: DUF452; cl01062 434271003215 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 434271003216 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 434271003217 substrate-cofactor binding pocket; other site 434271003218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271003219 catalytic residue [active] 434271003220 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 434271003221 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 434271003222 inhibitor-cofactor binding pocket; inhibition site 434271003223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271003224 catalytic residue [active] 434271003225 HemK family putative methylases; Region: hemK_fam; TIGR00536 434271003226 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 434271003227 S-adenosylmethionine binding site [chemical binding]; other site 434271003228 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 434271003229 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 434271003230 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 434271003231 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 434271003232 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 434271003233 Predicted acetyltransferase [General function prediction only]; Region: COG2388 434271003234 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 434271003235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 434271003236 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 434271003237 Winged helix-turn helix; Region: HTH_29; pfam13551 434271003238 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271003239 Integrase core domain; Region: rve; pfam00665 434271003240 Integrase core domain; Region: rve_3; pfam13683 434271003241 FRG domain; Region: FRG; cl07460 434271003242 Domain of unknown function (DUF955); Region: DUF955; pfam06114 434271003243 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 434271003244 salt bridge; other site 434271003245 non-specific DNA binding site [nucleotide binding]; other site 434271003246 sequence-specific DNA binding site [nucleotide binding]; other site 434271003247 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 434271003248 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 434271003249 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 434271003250 RTX N-terminal domain; Region: RTX; pfam02382 434271003251 RTX C-terminal domain; Region: RTX_C; pfam08339 434271003252 RTX toxin acyltransferase family; Region: HlyC; pfam02794 434271003253 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 434271003254 Helicase; Region: Helicase_RecD; pfam05127 434271003255 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434271003256 Coenzyme A binding pocket [chemical binding]; other site 434271003257 metal-binding heat shock protein; Provisional; Region: PRK00016 434271003258 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 434271003259 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 434271003260 purine monophosphate binding site [chemical binding]; other site 434271003261 dimer interface [polypeptide binding]; other site 434271003262 putative catalytic residues [active] 434271003263 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 434271003264 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 434271003265 Winged helix-turn helix; Region: HTH_29; pfam13551 434271003266 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271003267 Integrase core domain; Region: rve; pfam00665 434271003268 Integrase core domain; Region: rve_3; pfam13683 434271003269 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 434271003270 haemagglutination activity domain; Region: Haemagg_act; pfam05860 434271003271 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 434271003272 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 434271003273 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 434271003274 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 434271003275 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 434271003276 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 434271003277 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 434271003278 OstA-like protein; Region: OstA; pfam03968 434271003279 Organic solvent tolerance protein; Region: OstA_C; pfam04453 434271003280 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 434271003281 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 434271003282 FeS/SAM binding site; other site 434271003283 HemN C-terminal domain; Region: HemN_C; pfam06969 434271003284 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 434271003285 Der GTPase activator; Provisional; Region: PRK05244 434271003286 putative transporter; Validated; Region: PRK03818 434271003287 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 434271003288 TrkA-C domain; Region: TrkA_C; pfam02080 434271003289 TrkA-C domain; Region: TrkA_C; pfam02080 434271003290 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 434271003291 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 434271003292 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 434271003293 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 434271003294 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 434271003295 metal binding triad; other site 434271003296 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 434271003297 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 434271003298 metal binding triad; other site 434271003299 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 434271003300 YciI-like protein; Reviewed; Region: PRK11370 434271003301 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 434271003302 intracellular septation protein A; Reviewed; Region: PRK00259 434271003303 Protein of unknown function, DUF412; Region: DUF412; pfam04217 434271003304 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 434271003305 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 434271003306 Ligand Binding Site [chemical binding]; other site 434271003307 Predicted permease [General function prediction only]; Region: COG2056 434271003308 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 434271003309 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 434271003310 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 434271003311 putative catalytic site [active] 434271003312 putative phosphate binding site [ion binding]; other site 434271003313 active site 434271003314 metal binding site A [ion binding]; metal-binding site 434271003315 DNA binding site [nucleotide binding] 434271003316 putative AP binding site [nucleotide binding]; other site 434271003317 putative metal binding site B [ion binding]; other site 434271003318 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434271003319 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 434271003320 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 434271003321 putative dimerization interface [polypeptide binding]; other site 434271003322 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 434271003323 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 434271003324 putative active site [active] 434271003325 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 434271003326 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 434271003327 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 434271003328 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 434271003329 transketolase; Reviewed; Region: PRK12753 434271003330 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 434271003331 TPP-binding site [chemical binding]; other site 434271003332 dimer interface [polypeptide binding]; other site 434271003333 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 434271003334 PYR/PP interface [polypeptide binding]; other site 434271003335 dimer interface [polypeptide binding]; other site 434271003336 TPP binding site [chemical binding]; other site 434271003337 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 434271003338 heat shock protein 90; Provisional; Region: PRK05218 434271003339 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 434271003340 ATP binding site [chemical binding]; other site 434271003341 Mg2+ binding site [ion binding]; other site 434271003342 G-X-G motif; other site 434271003343 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 434271003344 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 434271003345 tetramer interface [polypeptide binding]; other site 434271003346 heme binding pocket [chemical binding]; other site 434271003347 NADPH binding site [chemical binding]; other site 434271003348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 434271003349 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271003350 Integrase core domain; Region: rve; pfam00665 434271003351 Integrase core domain; Region: rve_2; pfam13333 434271003352 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 434271003353 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 434271003354 putative active site [active] 434271003355 putative metal binding site [ion binding]; other site 434271003356 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 434271003357 ATP cone domain; Region: ATP-cone; pfam03477 434271003358 Class I ribonucleotide reductase; Region: RNR_I; cd01679 434271003359 active site 434271003360 dimer interface [polypeptide binding]; other site 434271003361 catalytic residues [active] 434271003362 effector binding site; other site 434271003363 R2 peptide binding site; other site 434271003364 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 434271003365 dimer interface [polypeptide binding]; other site 434271003366 putative radical transfer pathway; other site 434271003367 diiron center [ion binding]; other site 434271003368 tyrosyl radical; other site 434271003369 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 434271003370 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 434271003371 dimer interface [polypeptide binding]; other site 434271003372 active site 434271003373 galactokinase; Provisional; Region: PRK05101 434271003374 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 434271003375 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 434271003376 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 434271003377 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 434271003378 active site 434271003379 catalytic residues [active] 434271003380 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 434271003381 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 434271003382 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 434271003383 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 434271003384 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 434271003385 similar to iron-regulated protein 434271003386 antiporter inner membrane protein; Provisional; Region: PRK11670 434271003387 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 434271003388 Walker A motif; other site 434271003389 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 434271003390 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 434271003391 peptide binding site [polypeptide binding]; other site 434271003392 hypothetical protein; Provisional; Region: PRK11111 434271003393 periplasmic folding chaperone; Provisional; Region: PRK10788 434271003394 SurA N-terminal domain; Region: SurA_N_3; cl07813 434271003395 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 434271003396 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 434271003397 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 434271003398 16S/18S rRNA binding site [nucleotide binding]; other site 434271003399 S13e-L30e interaction site [polypeptide binding]; other site 434271003400 25S rRNA binding site [nucleotide binding]; other site 434271003401 Protein of unknown function (DUF808); Region: DUF808; pfam05661 434271003402 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 434271003403 HemY protein N-terminus; Region: HemY_N; pfam07219 434271003404 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 434271003405 TPR motif; other site 434271003406 binding surface 434271003407 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 434271003408 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 434271003409 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 434271003410 active site 434271003411 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 434271003412 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 434271003413 domain interfaces; other site 434271003414 active site 434271003415 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 434271003416 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 434271003417 putative catalytic cysteine [active] 434271003418 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 434271003419 putative active site [active] 434271003420 metal binding site [ion binding]; metal-binding site 434271003421 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 434271003422 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 434271003423 ring oligomerisation interface [polypeptide binding]; other site 434271003424 ATP/Mg binding site [chemical binding]; other site 434271003425 stacking interactions; other site 434271003426 hinge regions; other site 434271003427 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 434271003428 oligomerisation interface [polypeptide binding]; other site 434271003429 mobile loop; other site 434271003430 roof hairpin; other site 434271003431 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 434271003432 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 434271003433 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 434271003434 intersubunit interface [polypeptide binding]; other site 434271003435 active site 434271003436 catalytic residue [active] 434271003437 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 434271003438 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 434271003439 Nucleoside recognition; Region: Gate; pfam07670 434271003440 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 434271003441 Predicted membrane protein [Function unknown]; Region: COG2364 434271003442 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 434271003443 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 434271003444 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 434271003445 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 434271003446 active site 434271003447 intersubunit interface [polypeptide binding]; other site 434271003448 catalytic residue [active] 434271003449 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 434271003450 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 434271003451 substrate binding site [chemical binding]; other site 434271003452 ATP binding site [chemical binding]; other site 434271003453 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 434271003454 Glucuronate isomerase; Region: UxaC; cl00829 434271003455 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 434271003456 putative active site [active] 434271003457 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 434271003458 putative catalytic site [active] 434271003459 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 434271003460 DNA-binding site [nucleotide binding]; DNA binding site 434271003461 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 434271003462 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 434271003463 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 434271003464 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 434271003465 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 434271003466 active site 434271003467 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 434271003468 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 434271003469 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 434271003470 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 434271003471 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 434271003472 Uncharacterized conserved protein [Function unknown]; Region: COG1434 434271003473 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 434271003474 putative active site [active] 434271003475 primosome assembly protein PriA; Validated; Region: PRK05580 434271003476 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 434271003477 ATP binding site [chemical binding]; other site 434271003478 putative Mg++ binding site [ion binding]; other site 434271003479 helicase superfamily c-terminal domain; Region: HELICc; smart00490 434271003480 ATP-binding site [chemical binding]; other site 434271003481 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 434271003482 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 434271003483 Prephenate dehydratase; Region: PDT; pfam00800 434271003484 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 434271003485 putative L-Phe binding site [chemical binding]; other site 434271003486 oligopeptidase A; Provisional; Region: PRK10911 434271003487 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 434271003488 active site 434271003489 Zn binding site [ion binding]; other site 434271003490 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 434271003491 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 434271003492 FeS/SAM binding site; other site 434271003493 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 434271003494 Pyruvate formate lyase 1; Region: PFL1; cd01678 434271003495 coenzyme A binding site [chemical binding]; other site 434271003496 active site 434271003497 catalytic residues [active] 434271003498 glycine loop; other site 434271003499 formate transporter FocA; Region: formate_focA; TIGR04060 434271003500 Predicted membrane protein [Function unknown]; Region: COG1238 434271003501 heat shock protein HtpX; Provisional; Region: PRK05457 434271003502 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 434271003503 active site 434271003504 DNA polymerase IV; Validated; Region: PRK02406 434271003505 DNA binding site [nucleotide binding] 434271003506 Predicted membrane protein [Function unknown]; Region: COG2431 434271003507 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 434271003508 chorismate binding enzyme; Region: Chorismate_bind; cl10555 434271003509 aminotransferase AlaT; Validated; Region: PRK09265 434271003510 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 434271003511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271003512 homodimer interface [polypeptide binding]; other site 434271003513 catalytic residue [active] 434271003514 Predicted permeases [General function prediction only]; Region: RarD; COG2962 434271003515 Predicted permeases [General function prediction only]; Region: RarD; COG2962 434271003516 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 434271003517 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 434271003518 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 434271003519 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 434271003520 ligand-binding site [chemical binding]; other site 434271003521 heme utilization protein HutZ; Region: heme_HutZ; TIGR04110 434271003522 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 434271003523 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 434271003524 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 434271003525 binding surface 434271003526 TPR motif; other site 434271003527 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 434271003528 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 434271003529 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 434271003530 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 434271003531 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 434271003532 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 434271003533 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 434271003534 TrkA-N domain; Region: TrkA_N; pfam02254 434271003535 adenylate cyclase; Provisional; Region: cyaA; PRK09450 434271003536 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 434271003537 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 434271003538 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 434271003539 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 434271003540 dimer interface [polypeptide binding]; other site 434271003541 active site 434271003542 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 434271003543 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271003544 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271003545 putative transposase OrfB; Reviewed; Region: PHA02517 434271003546 HTH-like domain; Region: HTH_21; pfam13276 434271003547 Integrase core domain; Region: rve; pfam00665 434271003548 Integrase core domain; Region: rve_2; pfam13333 434271003549 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 434271003550 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 434271003551 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 434271003552 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 434271003553 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 434271003554 active site 434271003555 phosphorylation site [posttranslational modification] 434271003556 intermolecular recognition site; other site 434271003557 dimerization interface [polypeptide binding]; other site 434271003558 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 434271003559 DNA binding site [nucleotide binding] 434271003560 sensor protein QseC; Provisional; Region: PRK10337 434271003561 HAMP domain; Region: HAMP; pfam00672 434271003562 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 434271003563 dimer interface [polypeptide binding]; other site 434271003564 phosphorylation site [posttranslational modification] 434271003565 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 434271003566 ATP binding site [chemical binding]; other site 434271003567 G-X-G motif; other site 434271003568 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 434271003569 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 434271003570 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 434271003571 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 434271003572 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 434271003573 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 434271003574 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 434271003575 Protein export membrane protein; Region: SecD_SecF; pfam02355 434271003576 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 434271003577 Ferritin-like domain; Region: Ferritin; pfam00210 434271003578 ferroxidase diiron center [ion binding]; other site 434271003579 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 434271003580 Ferritin-like domain; Region: Ferritin; pfam00210 434271003581 ferroxidase diiron center [ion binding]; other site 434271003582 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 434271003583 Sulfate transporter family; Region: Sulfate_transp; pfam00916 434271003584 Maf-like protein; Region: Maf; pfam02545 434271003585 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 434271003586 active site 434271003587 dimer interface [polypeptide binding]; other site 434271003588 Uncharacterized conserved protein [Function unknown]; Region: COG2128 434271003589 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 434271003590 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 434271003591 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 434271003592 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 434271003593 Ligand Binding Site [chemical binding]; other site 434271003594 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 434271003595 active site residue [active] 434271003596 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 434271003597 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 434271003598 GDP-binding site [chemical binding]; other site 434271003599 ACT binding site; other site 434271003600 IMP binding site; other site 434271003601 FtsH protease regulator HflC; Provisional; Region: PRK11029 434271003602 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 434271003603 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 434271003604 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 434271003605 HflK protein; Region: hflK; TIGR01933 434271003606 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 434271003607 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 434271003608 catalytic residues [active] 434271003609 xanthine permease; Region: pbuX; TIGR03173 434271003610 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 434271003611 S-adenosylmethionine synthetase; Validated; Region: PRK05250 434271003612 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 434271003613 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 434271003614 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 434271003615 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 434271003616 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 434271003617 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 434271003618 acetylornithine deacetylase; Provisional; Region: PRK05111 434271003619 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 434271003620 metal binding site [ion binding]; metal-binding site 434271003621 putative dimer interface [polypeptide binding]; other site 434271003622 OmpW family; Region: OmpW; cl17427 434271003623 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 434271003624 Clp amino terminal domain; Region: Clp_N; pfam02861 434271003625 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 434271003626 Walker A motif; other site 434271003627 ATP binding site [chemical binding]; other site 434271003628 Walker B motif; other site 434271003629 arginine finger; other site 434271003630 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 434271003631 Walker A motif; other site 434271003632 ATP binding site [chemical binding]; other site 434271003633 Walker B motif; other site 434271003634 arginine finger; other site 434271003635 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 434271003636 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 434271003637 Sodium Bile acid symporter family; Region: SBF; cl17470 434271003638 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 434271003639 ArsC family; Region: ArsC; pfam03960 434271003640 catalytic residues [active] 434271003641 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 434271003642 putative DNA binding site [nucleotide binding]; other site 434271003643 putative Zn2+ binding site [ion binding]; other site 434271003644 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 434271003645 Aspartase; Region: Aspartase; cd01357 434271003646 active sites [active] 434271003647 tetramer interface [polypeptide binding]; other site 434271003648 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 434271003649 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 434271003650 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 434271003651 dimerization interface [polypeptide binding]; other site 434271003652 putative ATP binding site [chemical binding]; other site 434271003653 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 434271003654 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 434271003655 active site 434271003656 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 434271003657 Ligand Binding Site [chemical binding]; other site 434271003658 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 434271003659 active site 434271003660 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 434271003661 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 434271003662 FeS/SAM binding site; other site 434271003663 multifunctional aminopeptidase A; Provisional; Region: PRK00913 434271003664 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 434271003665 interface (dimer of trimers) [polypeptide binding]; other site 434271003666 Substrate-binding/catalytic site; other site 434271003667 Zn-binding sites [ion binding]; other site 434271003668 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 434271003669 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 434271003670 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 434271003671 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 434271003672 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 434271003673 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 434271003674 putative active site [active] 434271003675 putative PHP Thumb interface [polypeptide binding]; other site 434271003676 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 434271003677 generic binding surface II; other site 434271003678 generic binding surface I; other site 434271003679 ATP-grasp domain; Region: ATP-grasp_4; cl17255 434271003680 Cupin superfamily protein; Region: Cupin_4; pfam08007 434271003681 Cupin-like domain; Region: Cupin_8; pfam13621 434271003682 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 434271003683 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 434271003684 ATP-grasp domain; Region: ATP-grasp; pfam02222 434271003685 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 434271003686 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 434271003687 putative acyl-acceptor binding pocket; other site 434271003688 LexA repressor; Validated; Region: PRK00215 434271003689 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 434271003690 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 434271003691 Catalytic site [active] 434271003692 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 434271003693 putative DNA-binding cleft [nucleotide binding]; other site 434271003694 putative DNA clevage site; other site 434271003695 molecular lever; other site 434271003696 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 434271003697 beta-hexosaminidase; Provisional; Region: PRK05337 434271003698 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 434271003699 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 434271003700 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 434271003701 S-adenosylmethionine binding site [chemical binding]; other site 434271003702 enolase; Provisional; Region: eno; PRK00077 434271003703 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 434271003704 dimer interface [polypeptide binding]; other site 434271003705 metal binding site [ion binding]; metal-binding site 434271003706 substrate binding pocket [chemical binding]; other site 434271003707 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 434271003708 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 434271003709 nudix motif; other site 434271003710 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 434271003711 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 434271003712 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 434271003713 ATP binding site [chemical binding]; other site 434271003714 putative Mg++ binding site [ion binding]; other site 434271003715 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 434271003716 nucleotide binding region [chemical binding]; other site 434271003717 ATP-binding site [chemical binding]; other site 434271003718 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 434271003719 HRDC domain; Region: HRDC; pfam00570 434271003720 frataxin-like protein; Provisional; Region: cyaY; PRK00446 434271003721 putative iron binding site [ion binding]; other site 434271003722 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 434271003723 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 434271003724 UGMP family protein; Validated; Region: PRK09604 434271003725 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 434271003726 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 434271003727 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 434271003728 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 434271003729 RNA binding surface [nucleotide binding]; other site 434271003730 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 434271003731 active site 434271003732 YwiC-like protein; Region: YwiC; pfam14256 434271003733 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 434271003734 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 434271003735 active site 434271003736 ADP/pyrophosphate binding site [chemical binding]; other site 434271003737 dimerization interface [polypeptide binding]; other site 434271003738 allosteric effector site; other site 434271003739 fructose-1,6-bisphosphate binding site; other site 434271003740 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 434271003741 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 434271003742 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434271003743 catalytic residue [active] 434271003744 Staphylococcal nuclease homologues; Region: SNc; smart00318 434271003745 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 434271003746 Catalytic site; other site 434271003747 Excalibur calcium-binding domain; Region: Excalibur; cl05460 434271003748 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 434271003749 amino acid carrier protein; Region: agcS; TIGR00835 434271003750 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 434271003751 Domain of unknown function DUF20; Region: UPF0118; pfam01594 434271003752 Cytochrome b562; Region: Cytochrom_B562; pfam07361 434271003753 putative protease; Provisional; Region: PRK15452 434271003754 Peptidase family U32; Region: Peptidase_U32; pfam01136 434271003755 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 434271003756 O-Antigen ligase; Region: Wzy_C; pfam04932 434271003757 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 434271003758 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 434271003759 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 434271003760 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 434271003761 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 434271003762 active site 434271003763 (T/H)XGH motif; other site 434271003764 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 434271003765 catalytic site [active] 434271003766 putative active site [active] 434271003767 putative substrate binding site [chemical binding]; other site 434271003768 dimer interface [polypeptide binding]; other site 434271003769 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 434271003770 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 434271003771 active site 434271003772 metal binding site [ion binding]; metal-binding site 434271003773 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 434271003774 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 434271003775 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 434271003776 active site 434271003777 dimer interface [polypeptide binding]; other site 434271003778 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 434271003779 dimer interface [polypeptide binding]; other site 434271003780 active site 434271003781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 434271003782 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 434271003783 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 434271003784 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 434271003785 shikimate binding site; other site 434271003786 NAD(P) binding site [chemical binding]; other site 434271003787 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 434271003788 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 434271003789 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 434271003790 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 434271003791 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 434271003792 recombination regulator RecX; Reviewed; Region: recX; PRK00117 434271003793 recombinase A; Provisional; Region: recA; PRK09354 434271003794 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 434271003795 hexamer interface [polypeptide binding]; other site 434271003796 Walker A motif; other site 434271003797 ATP binding site [chemical binding]; other site 434271003798 Walker B motif; other site 434271003799 hypothetical protein; Provisional; Region: PRK07101 434271003800 substrate-cofactor binding pocket; other site 434271003801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271003802 catalytic residue [active] 434271003803 para-aminobenzoate synthase component I; Validated; Region: PRK07093 434271003804 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 434271003805 RmuC family; Region: RmuC; pfam02646 434271003806 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 434271003807 Glutamine amidotransferase class-I; Region: GATase; pfam00117 434271003808 glutamine binding [chemical binding]; other site 434271003809 catalytic triad [active] 434271003810 Domain of unknown function DUF302; Region: DUF302; cl01364 434271003811 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 434271003812 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 434271003813 dimer interface [polypeptide binding]; other site 434271003814 anticodon binding site; other site 434271003815 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 434271003816 homodimer interface [polypeptide binding]; other site 434271003817 motif 1; other site 434271003818 active site 434271003819 motif 2; other site 434271003820 GAD domain; Region: GAD; pfam02938 434271003821 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 434271003822 active site 434271003823 motif 3; other site 434271003824 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 434271003825 nudix motif; other site 434271003826 hypothetical protein; Validated; Region: PRK00110 434271003827 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 434271003828 active site 434271003829 putative DNA-binding cleft [nucleotide binding]; other site 434271003830 dimer interface [polypeptide binding]; other site 434271003831 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 434271003832 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 434271003833 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 434271003834 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 434271003835 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 434271003836 THF binding site; other site 434271003837 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 434271003838 substrate binding site [chemical binding]; other site 434271003839 THF binding site; other site 434271003840 zinc-binding site [ion binding]; other site 434271003841 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 434271003842 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 434271003843 transmembrane helices; other site 434271003844 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 434271003845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434271003846 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 434271003847 putative dimerization interface [polypeptide binding]; other site 434271003848 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 434271003849 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 434271003850 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 434271003851 RNA binding surface [nucleotide binding]; other site 434271003852 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 434271003853 probable active site [active] 434271003854 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 434271003855 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 434271003856 anthranilate synthase component I; Provisional; Region: PRK13564 434271003857 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 434271003858 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 434271003859 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 434271003860 Glutamine amidotransferase class-I; Region: GATase; pfam00117 434271003861 glutamine binding [chemical binding]; other site 434271003862 catalytic triad [active] 434271003863 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 434271003864 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 434271003865 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 434271003866 Methyltransferase domain; Region: Methyltransf_31; pfam13847 434271003867 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 434271003868 S-adenosylmethionine binding site [chemical binding]; other site 434271003869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 434271003870 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 434271003871 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 434271003872 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 434271003873 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 434271003874 primosomal replication protein N; Provisional; Region: PRK02801 434271003875 generic binding surface II; other site 434271003876 generic binding surface I; other site 434271003877 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 434271003878 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 434271003879 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 434271003880 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 434271003881 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 434271003882 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 434271003883 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 434271003884 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 434271003885 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 434271003886 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 434271003887 dimer interface [polypeptide binding]; other site 434271003888 motif 1; other site 434271003889 active site 434271003890 motif 2; other site 434271003891 motif 3; other site 434271003892 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 434271003893 anticodon binding site; other site 434271003894 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 434271003895 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 434271003896 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 434271003897 cytoskeletal protein RodZ; Provisional; Region: PRK10856 434271003898 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 434271003899 non-specific DNA binding site [nucleotide binding]; other site 434271003900 salt bridge; other site 434271003901 sequence-specific DNA binding site [nucleotide binding]; other site 434271003902 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 434271003903 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 434271003904 Sulfate transporter family; Region: Sulfate_transp; pfam00916 434271003905 argininosuccinate lyase; Provisional; Region: PRK04833 434271003906 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 434271003907 active sites [active] 434271003908 tetramer interface [polypeptide binding]; other site 434271003909 putative oxidoreductase; Provisional; Region: PRK11579 434271003910 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 434271003911 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 434271003912 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 434271003913 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 434271003914 TrkA-N domain; Region: TrkA_N; pfam02254 434271003915 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 434271003916 Transcriptional regulator [Transcription]; Region: LysR; COG0583 434271003917 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434271003918 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 434271003919 putative effector binding pocket; other site 434271003920 dimerization interface [polypeptide binding]; other site 434271003921 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 434271003922 MULE transposase domain; Region: MULE; pfam10551 434271003923 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 434271003924 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 434271003925 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 434271003926 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 434271003927 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 434271003928 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 434271003929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434271003930 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 434271003931 putative substrate binding pocket [chemical binding]; other site 434271003932 putative dimerization interface [polypeptide binding]; other site 434271003933 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 434271003934 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 434271003935 phosphate binding site [ion binding]; other site 434271003936 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 434271003937 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 434271003938 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 434271003939 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 434271003940 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 434271003941 dimer interface [polypeptide binding]; other site 434271003942 FMN binding site [chemical binding]; other site 434271003943 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 434271003944 Protein of unknown function, DUF479; Region: DUF479; cl01203 434271003945 S-formylglutathione hydrolase; Region: PLN02442 434271003946 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 434271003947 putative S-transferase; Provisional; Region: PRK11752 434271003948 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 434271003949 C-terminal domain interface [polypeptide binding]; other site 434271003950 GSH binding site (G-site) [chemical binding]; other site 434271003951 dimer interface [polypeptide binding]; other site 434271003952 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 434271003953 dimer interface [polypeptide binding]; other site 434271003954 N-terminal domain interface [polypeptide binding]; other site 434271003955 active site 434271003956 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 434271003957 oligomeric interface; other site 434271003958 putative active site [active] 434271003959 homodimer interface [polypeptide binding]; other site 434271003960 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 434271003961 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 434271003962 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 434271003963 substrate binding site [chemical binding]; other site 434271003964 catalytic Zn binding site [ion binding]; other site 434271003965 NAD binding site [chemical binding]; other site 434271003966 structural Zn binding site [ion binding]; other site 434271003967 dimer interface [polypeptide binding]; other site 434271003968 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 434271003969 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 434271003970 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 434271003971 Uncharacterized conserved protein [Function unknown]; Region: COG1801 434271003972 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 434271003973 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 434271003974 gating phenylalanine in ion channel; other site 434271003975 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 434271003976 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 434271003977 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 434271003978 motif II; other site 434271003979 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 434271003980 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 434271003981 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 434271003982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271003983 Walker A/P-loop; other site 434271003984 ATP binding site [chemical binding]; other site 434271003985 Q-loop/lid; other site 434271003986 ABC transporter signature motif; other site 434271003987 Walker B; other site 434271003988 D-loop; other site 434271003989 H-loop/switch region; other site 434271003990 S-ribosylhomocysteinase; Provisional; Region: PRK02260 434271003991 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 434271003992 mce related protein; Region: MCE; pfam02470 434271003993 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 434271003994 mce related protein; Region: MCE; pfam02470 434271003995 mce related protein; Region: MCE; pfam02470 434271003996 mce related protein; Region: MCE; pfam02470 434271003997 ferric uptake regulator; Provisional; Region: fur; PRK09462 434271003998 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 434271003999 metal binding site 2 [ion binding]; metal-binding site 434271004000 putative DNA binding helix; other site 434271004001 metal binding site 1 [ion binding]; metal-binding site 434271004002 dimer interface [polypeptide binding]; other site 434271004003 structural Zn2+ binding site [ion binding]; other site 434271004004 flavodoxin FldA; Validated; Region: PRK09267 434271004005 LexA regulated protein; Provisional; Region: PRK11675 434271004006 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 434271004007 putative deacylase active site [active] 434271004008 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 434271004009 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 434271004010 DsrE/DsrF-like family; Region: DrsE; cl00672 434271004011 Predicted flavoproteins [General function prediction only]; Region: COG2081 434271004012 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 434271004013 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 434271004014 rRNA binding site [nucleotide binding]; other site 434271004015 predicted 30S ribosome binding site; other site 434271004016 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 434271004017 phosphoserine phosphatase SerB; Region: serB; TIGR00338 434271004018 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 434271004019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 434271004020 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 434271004021 maltodextrin phosphorylase; Provisional; Region: PRK14985 434271004022 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 434271004023 active site pocket [active] 434271004024 transcriptional regulator MalT; Provisional; Region: PRK04841 434271004025 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 434271004026 binding surface 434271004027 TPR motif; other site 434271004028 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 434271004029 DNA binding residues [nucleotide binding] 434271004030 dimerization interface [polypeptide binding]; other site 434271004031 maltose regulon periplasmic protein; Provisional; Region: PRK10564 434271004032 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 434271004033 trimer interface; other site 434271004034 sugar binding site [chemical binding]; other site 434271004035 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 434271004036 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 434271004037 Walker A/P-loop; other site 434271004038 ATP binding site [chemical binding]; other site 434271004039 Q-loop/lid; other site 434271004040 ABC transporter signature motif; other site 434271004041 Walker B; other site 434271004042 D-loop; other site 434271004043 H-loop/switch region; other site 434271004044 TOBE domain; Region: TOBE_2; pfam08402 434271004045 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 434271004046 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 434271004047 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 434271004048 dimer interface [polypeptide binding]; other site 434271004049 conserved gate region; other site 434271004050 putative PBP binding loops; other site 434271004051 ABC-ATPase subunit interface; other site 434271004052 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 434271004053 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 434271004054 dimer interface [polypeptide binding]; other site 434271004055 conserved gate region; other site 434271004056 putative PBP binding loops; other site 434271004057 ABC-ATPase subunit interface; other site 434271004058 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 434271004059 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 434271004060 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 434271004061 Carbon starvation protein CstA; Region: CstA; pfam02554 434271004062 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 434271004063 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 434271004064 active site 434271004065 glutathione reductase; Validated; Region: PRK06116 434271004066 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 434271004067 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 434271004068 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 434271004069 hypothetical protein; Provisional; Region: PRK05208 434271004070 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 434271004071 dimer interface [polypeptide binding]; other site 434271004072 FMN binding site [chemical binding]; other site 434271004073 Predicted membrane protein [Function unknown]; Region: COG4541 434271004074 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 434271004075 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 434271004076 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 434271004077 Walker A/P-loop; other site 434271004078 ATP binding site [chemical binding]; other site 434271004079 Q-loop/lid; other site 434271004080 ABC transporter signature motif; other site 434271004081 Walker B; other site 434271004082 D-loop; other site 434271004083 H-loop/switch region; other site 434271004084 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 434271004085 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 434271004086 active site 434271004087 intersubunit interface [polypeptide binding]; other site 434271004088 zinc binding site [ion binding]; other site 434271004089 Na+ binding site [ion binding]; other site 434271004090 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 434271004091 Phosphoglycerate kinase; Region: PGK; pfam00162 434271004092 substrate binding site [chemical binding]; other site 434271004093 hinge regions; other site 434271004094 ADP binding site [chemical binding]; other site 434271004095 catalytic site [active] 434271004096 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 434271004097 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 434271004098 transmembrane helices; other site 434271004099 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 434271004100 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 434271004101 transmembrane helices; other site 434271004102 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 434271004103 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 434271004104 transmembrane helices; other site 434271004105 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 434271004106 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 434271004107 ATP binding site [chemical binding]; other site 434271004108 Mg2+ binding site [ion binding]; other site 434271004109 G-X-G motif; other site 434271004110 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 434271004111 anchoring element; other site 434271004112 dimer interface [polypeptide binding]; other site 434271004113 ATP binding site [chemical binding]; other site 434271004114 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 434271004115 active site 434271004116 putative metal-binding site [ion binding]; other site 434271004117 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 434271004118 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 434271004119 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 434271004120 putative active site [active] 434271004121 heme pocket [chemical binding]; other site 434271004122 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 434271004123 dimer interface [polypeptide binding]; other site 434271004124 phosphorylation site [posttranslational modification] 434271004125 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 434271004126 ATP binding site [chemical binding]; other site 434271004127 Mg2+ binding site [ion binding]; other site 434271004128 G-X-G motif; other site 434271004129 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 434271004130 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 434271004131 active site 434271004132 phosphorylation site [posttranslational modification] 434271004133 intermolecular recognition site; other site 434271004134 dimerization interface [polypeptide binding]; other site 434271004135 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 434271004136 DNA binding site [nucleotide binding] 434271004137 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 434271004138 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 434271004139 Walker A/P-loop; other site 434271004140 ATP binding site [chemical binding]; other site 434271004141 Q-loop/lid; other site 434271004142 ABC transporter signature motif; other site 434271004143 Walker B; other site 434271004144 D-loop; other site 434271004145 H-loop/switch region; other site 434271004146 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 434271004147 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 434271004148 dimer interface [polypeptide binding]; other site 434271004149 conserved gate region; other site 434271004150 putative PBP binding loops; other site 434271004151 ABC-ATPase subunit interface; other site 434271004152 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 434271004153 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 434271004154 dimer interface [polypeptide binding]; other site 434271004155 conserved gate region; other site 434271004156 putative PBP binding loops; other site 434271004157 ABC-ATPase subunit interface; other site 434271004158 PBP superfamily domain; Region: PBP_like_2; cl17296 434271004159 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 434271004160 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 434271004161 DNA binding residues [nucleotide binding] 434271004162 dimer interface [polypeptide binding]; other site 434271004163 copper binding site [ion binding]; other site 434271004164 Predicted metal-binding protein [General function prediction only]; Region: COG3019 434271004165 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 434271004166 metal-binding site [ion binding] 434271004167 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 434271004168 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 434271004169 metal-binding site [ion binding] 434271004170 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 434271004171 Soluble P-type ATPase [General function prediction only]; Region: COG4087 434271004172 short chain dehydrogenase; Provisional; Region: PRK05993 434271004173 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 434271004174 NADP binding site [chemical binding]; other site 434271004175 active site 434271004176 steroid binding site; other site 434271004177 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 434271004178 putative FMN binding site [chemical binding]; other site 434271004179 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 434271004180 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 434271004181 tandem repeat interface [polypeptide binding]; other site 434271004182 oligomer interface [polypeptide binding]; other site 434271004183 active site residues [active] 434271004184 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 434271004185 tandem repeat interface [polypeptide binding]; other site 434271004186 oligomer interface [polypeptide binding]; other site 434271004187 active site residues [active] 434271004188 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 434271004189 B1 nucleotide binding pocket [chemical binding]; other site 434271004190 B2 nucleotide binding pocket [chemical binding]; other site 434271004191 CAS motifs; other site 434271004192 active site 434271004193 hypothetical protein; Provisional; Region: PRK04860 434271004194 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 434271004195 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 434271004196 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 434271004197 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 434271004198 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 434271004199 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 434271004200 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 434271004201 RNA binding site [nucleotide binding]; other site 434271004202 TPR repeat; Region: TPR_11; pfam13414 434271004203 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 434271004204 binding surface 434271004205 TPR motif; other site 434271004206 TPR repeat; Region: TPR_11; pfam13414 434271004207 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 434271004208 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 434271004209 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 434271004210 FeS/SAM binding site; other site 434271004211 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 434271004212 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 434271004213 HIGH motif; other site 434271004214 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 434271004215 active site 434271004216 KMSKS motif; other site 434271004217 antitoxin YefM; Provisional; Region: PRK11409 434271004218 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 434271004219 Uncharacterized conserved protein [Function unknown]; Region: COG2835 434271004220 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 434271004221 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 434271004222 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 434271004223 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 434271004224 Walker A motif; other site 434271004225 ATP binding site [chemical binding]; other site 434271004226 Walker B motif; other site 434271004227 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 434271004228 Clp protease; Region: CLP_protease; pfam00574 434271004229 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 434271004230 oligomer interface [polypeptide binding]; other site 434271004231 active site residues [active] 434271004232 Fe-S metabolism associated domain; Region: SufE; cl00951 434271004233 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 434271004234 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 434271004235 active site 434271004236 catalytic site [active] 434271004237 substrate binding site [chemical binding]; other site 434271004238 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 434271004239 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 434271004240 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 434271004241 ABC transporter; Region: ABC_tran_2; pfam12848 434271004242 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 434271004243 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 434271004244 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 434271004245 active site residue [active] 434271004246 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 434271004247 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 434271004248 hinge; other site 434271004249 active site 434271004250 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 434271004251 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 434271004252 anti sigma factor interaction site; other site 434271004253 regulatory phosphorylation site [posttranslational modification]; other site 434271004254 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 434271004255 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 434271004256 mce related protein; Region: MCE; pfam02470 434271004257 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 434271004258 conserved hypothetical integral membrane protein; Region: TIGR00056 434271004259 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 434271004260 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 434271004261 Walker A/P-loop; other site 434271004262 ATP binding site [chemical binding]; other site 434271004263 Q-loop/lid; other site 434271004264 ABC transporter signature motif; other site 434271004265 Walker B; other site 434271004266 D-loop; other site 434271004267 H-loop/switch region; other site 434271004268 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 434271004269 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 434271004270 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 434271004271 protein binding site [polypeptide binding]; other site 434271004272 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 434271004273 protein binding site [polypeptide binding]; other site 434271004274 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 434271004275 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 434271004276 putative NAD(P) binding site [chemical binding]; other site 434271004277 putative active site [active] 434271004278 arginine repressor; Provisional; Region: PRK05066 434271004279 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 434271004280 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 434271004281 malate dehydrogenase; Provisional; Region: PRK05086 434271004282 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 434271004283 NAD binding site [chemical binding]; other site 434271004284 dimerization interface [polypeptide binding]; other site 434271004285 Substrate binding site [chemical binding]; other site 434271004286 adenylate kinase; Reviewed; Region: adk; PRK00279 434271004287 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 434271004288 AMP-binding site [chemical binding]; other site 434271004289 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 434271004290 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 434271004291 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 434271004292 N-terminal plug; other site 434271004293 ligand-binding site [chemical binding]; other site 434271004294 muropeptide transporter; Reviewed; Region: ampG; PRK11902 434271004295 AmpG-like permease; Region: 2A0125; TIGR00901 434271004296 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 434271004297 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 434271004298 NAD binding site [chemical binding]; other site 434271004299 homodimer interface [polypeptide binding]; other site 434271004300 active site 434271004301 substrate binding site [chemical binding]; other site 434271004302 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 434271004303 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 434271004304 nucleotide binding pocket [chemical binding]; other site 434271004305 K-X-D-G motif; other site 434271004306 catalytic site [active] 434271004307 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 434271004308 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 434271004309 Dimer interface [polypeptide binding]; other site 434271004310 BRCT sequence motif; other site 434271004311 cell division protein ZipA; Provisional; Region: PRK01741 434271004312 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 434271004313 FtsZ protein binding site [polypeptide binding]; other site 434271004314 putative sulfate transport protein CysZ; Validated; Region: PRK04949 434271004315 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 434271004316 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 434271004317 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 434271004318 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 434271004319 aspartate racemase; Region: asp_race; TIGR00035 434271004320 benzoate transport; Region: 2A0115; TIGR00895 434271004321 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 434271004322 putative substrate translocation pore; other site 434271004323 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; cl17904 434271004324 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 434271004325 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 434271004326 putative active site [active] 434271004327 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 434271004328 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 434271004329 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 434271004330 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 434271004331 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 434271004332 active site 434271004333 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 434271004334 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 434271004335 dimer interface [polypeptide binding]; other site 434271004336 ADP-ribose binding site [chemical binding]; other site 434271004337 active site 434271004338 nudix motif; other site 434271004339 metal binding site [ion binding]; metal-binding site 434271004340 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 434271004341 RNA binding surface [nucleotide binding]; other site 434271004342 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 434271004343 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 434271004344 dimerization interface [polypeptide binding]; other site 434271004345 domain crossover interface; other site 434271004346 redox-dependent activation switch; other site 434271004347 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 434271004348 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 434271004349 ornithine carbamoyltransferase; Provisional; Region: PRK01713 434271004350 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 434271004351 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 434271004352 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 434271004353 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 434271004354 putative substrate binding site [chemical binding]; other site 434271004355 nucleotide binding site [chemical binding]; other site 434271004356 nucleotide binding site [chemical binding]; other site 434271004357 homodimer interface [polypeptide binding]; other site 434271004358 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 434271004359 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 434271004360 active site turn [active] 434271004361 phosphorylation site [posttranslational modification] 434271004362 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 434271004363 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 434271004364 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 434271004365 Walker A/P-loop; other site 434271004366 ATP binding site [chemical binding]; other site 434271004367 Q-loop/lid; other site 434271004368 ABC transporter signature motif; other site 434271004369 Walker B; other site 434271004370 D-loop; other site 434271004371 H-loop/switch region; other site 434271004372 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 434271004373 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 434271004374 dimer interface [polypeptide binding]; other site 434271004375 conserved gate region; other site 434271004376 putative PBP binding loops; other site 434271004377 ABC-ATPase subunit interface; other site 434271004378 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 434271004379 dimer interface [polypeptide binding]; other site 434271004380 conserved gate region; other site 434271004381 putative PBP binding loops; other site 434271004382 ABC-ATPase subunit interface; other site 434271004383 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 434271004384 dimerization domain swap beta strand [polypeptide binding]; other site 434271004385 regulatory protein interface [polypeptide binding]; other site 434271004386 active site 434271004387 regulatory phosphorylation site [posttranslational modification]; other site 434271004388 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 434271004389 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 434271004390 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 434271004391 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 434271004392 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 434271004393 HPr interaction site; other site 434271004394 glycerol kinase (GK) interaction site [polypeptide binding]; other site 434271004395 active site 434271004396 phosphorylation site [posttranslational modification] 434271004397 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 434271004398 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 434271004399 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 434271004400 FeS/SAM binding site; other site 434271004401 TRAM domain; Region: TRAM; pfam01938 434271004402 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 434271004403 Part of AAA domain; Region: AAA_19; pfam13245 434271004404 Family description; Region: UvrD_C_2; pfam13538 434271004405 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 434271004406 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 434271004407 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 434271004408 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 434271004409 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 434271004410 dimerization interface [polypeptide binding]; other site 434271004411 ATP binding site [chemical binding]; other site 434271004412 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 434271004413 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 434271004414 HlyD family secretion protein; Region: HlyD_3; pfam13437 434271004415 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 434271004416 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 434271004417 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 434271004418 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 434271004419 Walker A/P-loop; other site 434271004420 ATP binding site [chemical binding]; other site 434271004421 Q-loop/lid; other site 434271004422 ABC transporter signature motif; other site 434271004423 Walker B; other site 434271004424 D-loop; other site 434271004425 H-loop/switch region; other site 434271004426 RTX N-terminal domain; Region: RTX; pfam02382 434271004427 RTX C-terminal domain; Region: RTX_C; pfam08339 434271004428 RTX toxin acyltransferase family; Region: HlyC; pfam02794 434271004429 Acylphosphatase; Region: Acylphosphatase; pfam00708 434271004430 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 434271004431 HypF finger; Region: zf-HYPF; pfam07503 434271004432 HypF finger; Region: zf-HYPF; pfam07503 434271004433 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 434271004434 hydrogenase 2 small subunit; Provisional; Region: PRK10468 434271004435 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 434271004436 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 434271004437 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 434271004438 4Fe-4S binding domain; Region: Fer4_6; pfam12837 434271004439 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 434271004440 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 434271004441 hydrogenase 2 large subunit; Provisional; Region: PRK10467 434271004442 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 434271004443 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 434271004444 putative substrate-binding site; other site 434271004445 nickel binding site [ion binding]; other site 434271004446 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 434271004447 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 434271004448 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 434271004449 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 434271004450 transcription-repair coupling factor; Provisional; Region: PRK10689 434271004451 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 434271004452 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 434271004453 ATP binding site [chemical binding]; other site 434271004454 putative Mg++ binding site [ion binding]; other site 434271004455 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 434271004456 nucleotide binding region [chemical binding]; other site 434271004457 ATP-binding site [chemical binding]; other site 434271004458 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 434271004459 aminopeptidase N; Provisional; Region: pepN; PRK14015 434271004460 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 434271004461 active site 434271004462 Zn binding site [ion binding]; other site 434271004463 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 434271004464 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 434271004465 homooctamer interface [polypeptide binding]; other site 434271004466 active site 434271004467 cytidine deaminase; Provisional; Region: PRK09027 434271004468 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 434271004469 active site 434271004470 catalytic motif [active] 434271004471 Zn binding site [ion binding]; other site 434271004472 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 434271004473 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 434271004474 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 434271004475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271004476 Walker A/P-loop; other site 434271004477 ATP binding site [chemical binding]; other site 434271004478 ABC transporter; Region: ABC_tran; pfam00005 434271004479 Q-loop/lid; other site 434271004480 ABC transporter signature motif; other site 434271004481 Walker B; other site 434271004482 D-loop; other site 434271004483 H-loop/switch region; other site 434271004484 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 434271004485 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 434271004486 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 434271004487 P loop; other site 434271004488 GTP binding site [chemical binding]; other site 434271004489 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 434271004490 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 434271004491 dsDNA-mimic protein; Reviewed; Region: PRK05094 434271004492 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 434271004493 tellurite resistance protein TehB; Provisional; Region: PRK12335 434271004494 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 434271004495 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 434271004496 S-adenosylmethionine binding site [chemical binding]; other site 434271004497 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 434271004498 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 434271004499 dimer interface [polypeptide binding]; other site 434271004500 conserved gate region; other site 434271004501 putative PBP binding loops; other site 434271004502 ABC-ATPase subunit interface; other site 434271004503 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 434271004504 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 434271004505 dimer interface [polypeptide binding]; other site 434271004506 conserved gate region; other site 434271004507 putative PBP binding loops; other site 434271004508 ABC-ATPase subunit interface; other site 434271004509 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 434271004510 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 434271004511 substrate binding pocket [chemical binding]; other site 434271004512 membrane-bound complex binding site; other site 434271004513 hinge residues; other site 434271004514 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 434271004515 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 434271004516 Walker A/P-loop; other site 434271004517 ATP binding site [chemical binding]; other site 434271004518 Q-loop/lid; other site 434271004519 ABC transporter signature motif; other site 434271004520 Walker B; other site 434271004521 D-loop; other site 434271004522 H-loop/switch region; other site 434271004523 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 434271004524 substrate binding site [chemical binding]; other site 434271004525 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 434271004526 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 434271004527 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 434271004528 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 434271004529 salt bridge; other site 434271004530 non-specific DNA binding site [nucleotide binding]; other site 434271004531 sequence-specific DNA binding site [nucleotide binding]; other site 434271004532 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 434271004533 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 434271004534 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 434271004535 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 434271004536 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 434271004537 DsbD alpha interface [polypeptide binding]; other site 434271004538 catalytic residues [active] 434271004539 Protein of unknown function, DUF462; Region: DUF462; pfam04315 434271004540 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 434271004541 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 434271004542 putative SAM binding site [chemical binding]; other site 434271004543 putative homodimer interface [polypeptide binding]; other site 434271004544 LppC putative lipoprotein; Region: LppC; pfam04348 434271004545 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 434271004546 putative ligand binding site [chemical binding]; other site 434271004547 hypothetical protein; Reviewed; Region: PRK12497 434271004548 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 434271004549 dimer interface [polypeptide binding]; other site 434271004550 active site 434271004551 outer membrane lipoprotein; Provisional; Region: PRK11023 434271004552 BON domain; Region: BON; pfam04972 434271004553 bacterial OsmY and nodulation domain; Region: BON; smart00749 434271004554 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 434271004555 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 434271004556 substrate binding pocket [chemical binding]; other site 434271004557 membrane-bound complex binding site; other site 434271004558 hinge residues; other site 434271004559 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 434271004560 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434271004561 catalytic residue [active] 434271004562 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 434271004563 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 434271004564 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 434271004565 heme exporter protein CcmC; Region: ccmC; TIGR01191 434271004566 heme exporter protein CcmB; Region: ccmB; TIGR01190 434271004567 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 434271004568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271004569 Walker A/P-loop; other site 434271004570 ATP binding site [chemical binding]; other site 434271004571 Q-loop/lid; other site 434271004572 ABC transporter signature motif; other site 434271004573 Walker B; other site 434271004574 D-loop; other site 434271004575 H-loop/switch region; other site 434271004576 DNA replication initiation factor; Validated; Region: PRK06893 434271004577 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 434271004578 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 434271004579 oxaloacetate decarboxylase; Provisional; Region: PRK14040 434271004580 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 434271004581 active site 434271004582 catalytic residues [active] 434271004583 metal binding site [ion binding]; metal-binding site 434271004584 homodimer binding site [polypeptide binding]; other site 434271004585 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 434271004586 carboxyltransferase (CT) interaction site; other site 434271004587 biotinylation site [posttranslational modification]; other site 434271004588 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 434271004589 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 434271004590 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 434271004591 PhnA protein; Region: PhnA; pfam03831 434271004592 Haem-binding domain; Region: Haem_bd; pfam14376 434271004593 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 434271004594 hypothetical protein; Validated; Region: PRK05090 434271004595 YGGT family; Region: YGGT; pfam02325 434271004596 YGGT family; Region: YGGT; pfam02325 434271004597 hypothetical protein; Provisional; Region: PRK11702 434271004598 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 434271004599 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 434271004600 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 434271004601 dimer interface [polypeptide binding]; other site 434271004602 active site 434271004603 CoA binding pocket [chemical binding]; other site 434271004604 putative phosphate acyltransferase; Provisional; Region: PRK05331 434271004605 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 434271004606 hypothetical protein; Provisional; Region: PRK11193 434271004607 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 434271004608 hypothetical protein; Provisional; Region: PRK11573 434271004609 Domain of unknown function DUF21; Region: DUF21; pfam01595 434271004610 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 434271004611 Transporter associated domain; Region: CorC_HlyC; smart01091 434271004612 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 434271004613 Na2 binding site [ion binding]; other site 434271004614 putative substrate binding site 1 [chemical binding]; other site 434271004615 Na binding site 1 [ion binding]; other site 434271004616 putative substrate binding site 2 [chemical binding]; other site 434271004617 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 434271004618 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 434271004619 active pocket/dimerization site; other site 434271004620 active site 434271004621 phosphorylation site [posttranslational modification] 434271004622 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 434271004623 active site 434271004624 phosphorylation site [posttranslational modification] 434271004625 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 434271004626 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 434271004627 hypothetical protein; Provisional; Region: PRK02913 434271004628 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 434271004629 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 434271004630 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 434271004631 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 434271004632 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 434271004633 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 434271004634 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 434271004635 dimer interface [polypeptide binding]; other site 434271004636 conserved gate region; other site 434271004637 putative PBP binding loops; other site 434271004638 ABC-ATPase subunit interface; other site 434271004639 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 434271004640 dimer interface [polypeptide binding]; other site 434271004641 conserved gate region; other site 434271004642 putative PBP binding loops; other site 434271004643 ABC-ATPase subunit interface; other site 434271004644 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 434271004645 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 434271004646 Walker A/P-loop; other site 434271004647 ATP binding site [chemical binding]; other site 434271004648 Q-loop/lid; other site 434271004649 ABC transporter signature motif; other site 434271004650 Walker B; other site 434271004651 D-loop; other site 434271004652 H-loop/switch region; other site 434271004653 TOBE domain; Region: TOBE_2; pfam08402 434271004654 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 434271004655 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 434271004656 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 434271004657 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 434271004658 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 434271004659 AMP binding site [chemical binding]; other site 434271004660 metal binding site [ion binding]; metal-binding site 434271004661 active site 434271004662 Transposase, Mutator family; Region: Transposase_mut; pfam00872 434271004663 elongation factor Tu; Reviewed; Region: PRK00049 434271004664 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 434271004665 G1 box; other site 434271004666 GEF interaction site [polypeptide binding]; other site 434271004667 GTP/Mg2+ binding site [chemical binding]; other site 434271004668 Switch I region; other site 434271004669 G2 box; other site 434271004670 G3 box; other site 434271004671 Switch II region; other site 434271004672 G4 box; other site 434271004673 G5 box; other site 434271004674 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 434271004675 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 434271004676 Antibiotic Binding Site [chemical binding]; other site 434271004677 similar to elongation factor G 434271004678 30S ribosomal protein S7; Validated; Region: PRK05302 434271004679 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 434271004680 S17 interaction site [polypeptide binding]; other site 434271004681 S8 interaction site; other site 434271004682 16S rRNA interaction site [nucleotide binding]; other site 434271004683 streptomycin interaction site [chemical binding]; other site 434271004684 23S rRNA interaction site [nucleotide binding]; other site 434271004685 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 434271004686 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 434271004687 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 434271004688 putative active site [active] 434271004689 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 434271004690 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 434271004691 putative active site [active] 434271004692 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 434271004693 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 434271004694 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 434271004695 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 434271004696 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 434271004697 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 434271004698 ATP binding site [chemical binding]; other site 434271004699 putative Mg++ binding site [ion binding]; other site 434271004700 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 434271004701 nucleotide binding region [chemical binding]; other site 434271004702 ATP-binding site [chemical binding]; other site 434271004703 HsdM N-terminal domain; Region: HsdM_N; pfam12161 434271004704 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 434271004705 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 434271004706 S-adenosylmethionine binding site [chemical binding]; other site 434271004707 Virulence protein [General function prediction only]; Region: COG3943 434271004708 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 434271004709 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 434271004710 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 434271004711 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 434271004712 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 434271004713 active site 434271004714 DNA binding site [nucleotide binding] 434271004715 Int/Topo IB signature motif; other site 434271004716 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 434271004717 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 434271004718 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 434271004719 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 434271004720 ATP-grasp domain; Region: ATP-grasp_4; cl17255 434271004721 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 434271004722 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 434271004723 DNA binding residues [nucleotide binding] 434271004724 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 434271004725 aromatic amino acid transport protein; Region: araaP; TIGR00837 434271004726 Protein of unknown function (DUF406); Region: DUF406; pfam04175 434271004727 similar to putative oxidoreductase YcsN 434271004728 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 434271004729 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 434271004730 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 434271004731 acyl-activating enzyme (AAE) consensus motif; other site 434271004732 putative AMP binding site [chemical binding]; other site 434271004733 putative active site [active] 434271004734 putative CoA binding site [chemical binding]; other site 434271004735 malate:quinone oxidoreductase; Validated; Region: PRK05257 434271004736 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 434271004737 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 434271004738 Predicted membrane protein [Function unknown]; Region: COG4125 434271004739 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 434271004740 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 434271004741 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 434271004742 TM-ABC transporter signature motif; other site 434271004743 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271004744 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 434271004745 Walker A/P-loop; other site 434271004746 ATP binding site [chemical binding]; other site 434271004747 Q-loop/lid; other site 434271004748 ABC transporter signature motif; other site 434271004749 Walker B; other site 434271004750 D-loop; other site 434271004751 H-loop/switch region; other site 434271004752 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 434271004753 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 434271004754 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 434271004755 ligand binding site [chemical binding]; other site 434271004756 calcium binding site [ion binding]; other site 434271004757 outer membrane protein A; Reviewed; Region: PRK10808 434271004758 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 434271004759 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 434271004760 ligand binding site [chemical binding]; other site 434271004761 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 434271004762 FAD binding domain; Region: FAD_binding_4; pfam01565 434271004763 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 434271004764 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 434271004765 CoenzymeA binding site [chemical binding]; other site 434271004766 subunit interaction site [polypeptide binding]; other site 434271004767 PHB binding site; other site 434271004768 membrane protein insertase; Provisional; Region: PRK01318 434271004769 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 434271004770 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 434271004771 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 434271004772 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 434271004773 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 434271004774 4Fe-4S binding domain; Region: Fer4_5; pfam12801 434271004775 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 434271004776 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 434271004777 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 434271004778 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 434271004779 [4Fe-4S] binding site [ion binding]; other site 434271004780 molybdopterin cofactor binding site; other site 434271004781 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 434271004782 molybdopterin cofactor binding site; other site 434271004783 NapD protein; Region: NapD; pfam03927 434271004784 ferredoxin-type protein; Provisional; Region: PRK10194 434271004785 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 434271004786 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 434271004787 putative transposase OrfB; Reviewed; Region: PHA02517 434271004788 HTH-like domain; Region: HTH_21; pfam13276 434271004789 Integrase core domain; Region: rve; pfam00665 434271004790 Integrase core domain; Region: rve_2; pfam13333 434271004791 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 434271004792 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271004793 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271004794 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 434271004795 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 434271004796 homodimer interface [polypeptide binding]; other site 434271004797 oligonucleotide binding site [chemical binding]; other site 434271004798 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 434271004799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 434271004800 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 434271004801 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 434271004802 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 434271004803 metal binding site [ion binding]; metal-binding site 434271004804 Transposase, Mutator family; Region: Transposase_mut; pfam00872 434271004805 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 434271004806 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 434271004807 ligand binding site [chemical binding]; other site 434271004808 NAD binding site [chemical binding]; other site 434271004809 tetramer interface [polypeptide binding]; other site 434271004810 catalytic site [active] 434271004811 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 434271004812 L-serine binding site [chemical binding]; other site 434271004813 ACT domain interface; other site 434271004814 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 434271004815 tetramer (dimer of dimers) interface [polypeptide binding]; other site 434271004816 active site 434271004817 dimer interface [polypeptide binding]; other site 434271004818 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 434271004819 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 434271004820 active site 434271004821 substrate binding site [chemical binding]; other site 434271004822 metal binding site [ion binding]; metal-binding site 434271004823 threonine dehydratase; Reviewed; Region: PRK09224 434271004824 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 434271004825 tetramer interface [polypeptide binding]; other site 434271004826 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271004827 catalytic residue [active] 434271004828 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 434271004829 putative Ile/Val binding site [chemical binding]; other site 434271004830 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 434271004831 putative Ile/Val binding site [chemical binding]; other site 434271004832 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 434271004833 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 434271004834 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 434271004835 amphipathic channel; other site 434271004836 Asn-Pro-Ala signature motifs; other site 434271004837 Uncharacterized conserved protein [Function unknown]; Region: COG2968 434271004838 Protein of unknown function (DUF541); Region: SIMPL; cl01077 434271004839 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 434271004840 homodimer interaction site [polypeptide binding]; other site 434271004841 cofactor binding site; other site 434271004842 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 434271004843 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 434271004844 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 434271004845 UbiA prenyltransferase family; Region: UbiA; pfam01040 434271004846 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 434271004847 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 434271004848 Chain length determinant protein; Region: Wzz; pfam02706 434271004849 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 434271004850 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434271004851 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 434271004852 putative ADP-binding pocket [chemical binding]; other site 434271004853 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 434271004854 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 434271004855 active site 434271004856 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 434271004857 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 434271004858 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 434271004859 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 434271004860 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 434271004861 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 434271004862 UDP-galactopyranose mutase; Region: GLF; pfam03275 434271004863 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 434271004864 Bacterial sugar transferase; Region: Bac_transf; pfam02397 434271004865 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 434271004866 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 434271004867 Acyltransferase family; Region: Acyl_transf_3; pfam01757 434271004868 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 434271004869 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 434271004870 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 434271004871 NAD binding site [chemical binding]; other site 434271004872 substrate binding site [chemical binding]; other site 434271004873 homodimer interface [polypeptide binding]; other site 434271004874 active site 434271004875 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 434271004876 DNA primase; Validated; Region: dnaG; PRK05667 434271004877 CHC2 zinc finger; Region: zf-CHC2; pfam01807 434271004878 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 434271004879 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 434271004880 active site 434271004881 metal binding site [ion binding]; metal-binding site 434271004882 interdomain interaction site; other site 434271004883 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 434271004884 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 434271004885 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 434271004886 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 434271004887 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 434271004888 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 434271004889 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 434271004890 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 434271004891 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 434271004892 DNA binding residues [nucleotide binding] 434271004893 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 434271004894 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 434271004895 active site 434271004896 HIGH motif; other site 434271004897 dimer interface [polypeptide binding]; other site 434271004898 KMSKS motif; other site 434271004899 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 434271004900 RNA binding surface [nucleotide binding]; other site 434271004901 exoribonuclease R; Provisional; Region: PRK11642 434271004902 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 434271004903 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 434271004904 RNB domain; Region: RNB; pfam00773 434271004905 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 434271004906 RNA binding site [nucleotide binding]; other site 434271004907 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 434271004908 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 434271004909 catalytic residues [active] 434271004910 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 434271004911 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 434271004912 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 434271004913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434271004914 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 434271004915 dimerization interface [polypeptide binding]; other site 434271004916 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 434271004917 catalytic triad [active] 434271004918 dimer interface [polypeptide binding]; other site 434271004919 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 434271004920 Transposase, Mutator family; Region: Transposase_mut; pfam00872 434271004921 MULE transposase domain; Region: MULE; pfam10551 434271004922 pyridoxamine kinase; Validated; Region: PRK05756 434271004923 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 434271004924 ATP binding site [chemical binding]; other site 434271004925 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 434271004926 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 434271004927 FtsI repressor; Provisional; Region: PRK10883 434271004928 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 434271004929 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 434271004930 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 434271004931 putative acyl-acceptor binding pocket; other site 434271004932 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 434271004933 dimer interface [polypeptide binding]; other site 434271004934 catalytic triad [active] 434271004935 peroxidatic and resolving cysteines [active] 434271004936 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 434271004937 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 434271004938 trmE is a tRNA modification GTPase; Region: trmE; cd04164 434271004939 G1 box; other site 434271004940 GTP/Mg2+ binding site [chemical binding]; other site 434271004941 Switch I region; other site 434271004942 G2 box; other site 434271004943 Switch II region; other site 434271004944 G3 box; other site 434271004945 G4 box; other site 434271004946 G5 box; other site 434271004947 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 434271004948 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 434271004949 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 434271004950 Pirin-related protein [General function prediction only]; Region: COG1741 434271004951 Pirin; Region: Pirin; pfam02678 434271004952 Ferritin-like domain; Region: Ferritin; pfam00210 434271004953 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 434271004954 dimerization interface [polypeptide binding]; other site 434271004955 DPS ferroxidase diiron center [ion binding]; other site 434271004956 ion pore; other site 434271004957 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 434271004958 non-specific DNA binding site [nucleotide binding]; other site 434271004959 salt bridge; other site 434271004960 sequence-specific DNA binding site [nucleotide binding]; other site 434271004961 Patatin-like phospholipase; Region: Patatin; pfam01734 434271004962 active site 434271004963 nucleophile elbow; other site 434271004964 TIGR01666 family membrane protein; Region: YCCS 434271004965 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 434271004966 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 434271004967 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 434271004968 active site 434271004969 dimer interfaces [polypeptide binding]; other site 434271004970 catalytic residues [active] 434271004971 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 434271004972 threonine synthase; Validated; Region: PRK09225 434271004973 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434271004974 catalytic residue [active] 434271004975 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 434271004976 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271004977 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271004978 putative transposase OrfB; Reviewed; Region: PHA02517 434271004979 HTH-like domain; Region: HTH_21; pfam13276 434271004980 Integrase core domain; Region: rve; pfam00665 434271004981 Integrase core domain; Region: rve_2; pfam13333 434271004982 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 434271004983 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 434271004984 HIGH motif; other site 434271004985 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 434271004986 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 434271004987 active site 434271004988 KMSKS motif; other site 434271004989 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 434271004990 tRNA binding surface [nucleotide binding]; other site 434271004991 anticodon binding site; other site 434271004992 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 434271004993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434271004994 Coenzyme A binding pocket [chemical binding]; other site 434271004995 DNA polymerase III subunit chi; Validated; Region: PRK05728 434271004996 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 434271004997 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 434271004998 trigger factor; Provisional; Region: tig; PRK01490 434271004999 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 434271005000 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 434271005001 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 434271005002 active site residue [active] 434271005003 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 434271005004 SecA binding site; other site 434271005005 Preprotein binding site; other site 434271005006 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 434271005007 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 434271005008 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 434271005009 serine acetyltransferase; Provisional; Region: cysE; PRK11132 434271005010 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 434271005011 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 434271005012 trimer interface [polypeptide binding]; other site 434271005013 active site 434271005014 substrate binding site [chemical binding]; other site 434271005015 CoA binding site [chemical binding]; other site 434271005016 elongation factor Tu; Reviewed; Region: PRK00049 434271005017 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 434271005018 G1 box; other site 434271005019 GEF interaction site [polypeptide binding]; other site 434271005020 GTP/Mg2+ binding site [chemical binding]; other site 434271005021 Switch I region; other site 434271005022 G2 box; other site 434271005023 G3 box; other site 434271005024 Switch II region; other site 434271005025 G4 box; other site 434271005026 G5 box; other site 434271005027 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 434271005028 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 434271005029 Antibiotic Binding Site [chemical binding]; other site 434271005030 pantothenate kinase; Provisional; Region: PRK05439 434271005031 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 434271005032 ATP-binding site [chemical binding]; other site 434271005033 CoA-binding site [chemical binding]; other site 434271005034 Mg2+-binding site [ion binding]; other site 434271005035 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 434271005036 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 434271005037 catalytic residues [active] 434271005038 central insert; other site 434271005039 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 434271005040 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 434271005041 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 434271005042 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 434271005043 binding surface 434271005044 TPR motif; other site 434271005045 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 434271005046 MPT binding site; other site 434271005047 trimer interface [polypeptide binding]; other site 434271005048 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 434271005049 Nitrogen regulatory protein P-II; Region: P-II; smart00938 434271005050 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 434271005051 lipoprotein signal peptidase; Provisional; Region: PRK14787 434271005052 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 434271005053 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 434271005054 Uncharacterized conserved protein [Function unknown]; Region: COG2938 434271005055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434271005056 NADH(P)-binding; Region: NAD_binding_10; pfam13460 434271005057 NAD(P) binding site [chemical binding]; other site 434271005058 active site 434271005059 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 434271005060 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 434271005061 FeS/SAM binding site; other site 434271005062 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 434271005063 glutathionine S-transferase; Provisional; Region: PRK10542 434271005064 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 434271005065 C-terminal domain interface [polypeptide binding]; other site 434271005066 GSH binding site (G-site) [chemical binding]; other site 434271005067 dimer interface [polypeptide binding]; other site 434271005068 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 434271005069 dimer interface [polypeptide binding]; other site 434271005070 N-terminal domain interface [polypeptide binding]; other site 434271005071 substrate binding pocket (H-site) [chemical binding]; other site 434271005072 diaminopimelate decarboxylase; Region: lysA; TIGR01048 434271005073 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 434271005074 active site 434271005075 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 434271005076 substrate binding site [chemical binding]; other site 434271005077 catalytic residues [active] 434271005078 dimer interface [polypeptide binding]; other site 434271005079 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 434271005080 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 434271005081 Iron-sulfur protein interface; other site 434271005082 proximal quinone binding site [chemical binding]; other site 434271005083 C-subunit interface; other site 434271005084 distal quinone binding site; other site 434271005085 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 434271005086 D-subunit interface [polypeptide binding]; other site 434271005087 Iron-sulfur protein interface; other site 434271005088 proximal quinone binding site [chemical binding]; other site 434271005089 distal quinone binding site [chemical binding]; other site 434271005090 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 434271005091 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 434271005092 catalytic loop [active] 434271005093 iron binding site [ion binding]; other site 434271005094 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 434271005095 L-aspartate oxidase; Provisional; Region: PRK06175 434271005096 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 434271005097 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 434271005098 poxB regulator PoxA; Provisional; Region: PRK09350 434271005099 motif 1; other site 434271005100 dimer interface [polypeptide binding]; other site 434271005101 active site 434271005102 motif 2; other site 434271005103 motif 3; other site 434271005104 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 434271005105 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 434271005106 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 434271005107 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 434271005108 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 434271005109 chromosome condensation membrane protein; Provisional; Region: PRK14196 434271005110 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434271005111 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 434271005112 putative substrate translocation pore; other site 434271005113 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 434271005114 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 434271005115 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 434271005116 putative active site [active] 434271005117 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 434271005118 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 434271005119 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 434271005120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 434271005121 protease TldD; Provisional; Region: tldD; PRK10735 434271005122 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 434271005123 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 434271005124 Ligand Binding Site [chemical binding]; other site 434271005125 TilS substrate binding domain; Region: TilS; pfam09179 434271005126 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 434271005127 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 434271005128 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 434271005129 active site 434271005130 Int/Topo IB signature motif; other site 434271005131 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 434271005132 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 434271005133 putative common antigen polymerase; Provisional; Region: PRK02975 434271005134 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 434271005135 hybrid cluster protein; Provisional; Region: PRK05290 434271005136 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 434271005137 ACS interaction site; other site 434271005138 CODH interaction site; other site 434271005139 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 434271005140 CODH interaction site; other site 434271005141 metal cluster binding site [ion binding]; other site 434271005142 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 434271005143 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 434271005144 FAD binding pocket [chemical binding]; other site 434271005145 FAD binding motif [chemical binding]; other site 434271005146 phosphate binding motif [ion binding]; other site 434271005147 beta-alpha-beta structure motif; other site 434271005148 NAD binding pocket [chemical binding]; other site 434271005149 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 434271005150 catalytic loop [active] 434271005151 iron binding site [ion binding]; other site 434271005152 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 434271005153 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 434271005154 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 434271005155 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 434271005156 inhibitor-cofactor binding pocket; inhibition site 434271005157 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271005158 catalytic residue [active] 434271005159 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434271005160 Coenzyme A binding pocket [chemical binding]; other site 434271005161 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 434271005162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 434271005163 NAD(P) binding site [chemical binding]; other site 434271005164 active site 434271005165 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 434271005166 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 434271005167 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 434271005168 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 434271005169 active site 434271005170 homodimer interface [polypeptide binding]; other site 434271005171 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 434271005172 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 434271005173 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 434271005174 Mg++ binding site [ion binding]; other site 434271005175 putative catalytic motif [active] 434271005176 substrate binding site [chemical binding]; other site 434271005177 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 434271005178 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 434271005179 inhibitor-cofactor binding pocket; inhibition site 434271005180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271005181 catalytic residue [active] 434271005182 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 434271005183 Major Facilitator Superfamily; Region: MFS_1; pfam07690 434271005184 putative substrate translocation pore; other site 434271005185 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 434271005186 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 434271005187 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 434271005188 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 434271005189 TrkA-N domain; Region: TrkA_N; pfam02254 434271005190 TrkA-C domain; Region: TrkA_C; pfam02080 434271005191 TrkA-N domain; Region: TrkA_N; pfam02254 434271005192 TrkA-C domain; Region: TrkA_C; pfam02080 434271005193 16S rRNA methyltransferase B; Provisional; Region: PRK10901 434271005194 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 434271005195 putative RNA binding site [nucleotide binding]; other site 434271005196 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 434271005197 S-adenosylmethionine binding site [chemical binding]; other site 434271005198 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 434271005199 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 434271005200 G1 box; other site 434271005201 putative GEF interaction site [polypeptide binding]; other site 434271005202 GTP/Mg2+ binding site [chemical binding]; other site 434271005203 Switch I region; other site 434271005204 G2 box; other site 434271005205 G3 box; other site 434271005206 Switch II region; other site 434271005207 G4 box; other site 434271005208 G5 box; other site 434271005209 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 434271005210 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 434271005211 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 434271005212 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 434271005213 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 434271005214 selenocysteine synthase; Provisional; Region: PRK04311 434271005215 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 434271005216 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 434271005217 catalytic residue [active] 434271005218 FMN-binding protein MioC; Provisional; Region: PRK09004 434271005219 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 434271005220 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 434271005221 putative N- and C-terminal domain interface [polypeptide binding]; other site 434271005222 putative active site [active] 434271005223 MgATP binding site [chemical binding]; other site 434271005224 catalytic site [active] 434271005225 metal binding site [ion binding]; metal-binding site 434271005226 putative xylulose binding site [chemical binding]; other site 434271005227 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 434271005228 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 434271005229 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 434271005230 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 434271005231 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 434271005232 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 434271005233 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 434271005234 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 434271005235 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 434271005236 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 434271005237 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 434271005238 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 434271005239 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 434271005240 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 434271005241 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 434271005242 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 434271005243 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 434271005244 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 434271005245 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434271005246 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 434271005247 putative ADP-binding pocket [chemical binding]; other site 434271005248 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434271005249 Tetratricopeptide repeat; Region: TPR_16; pfam13432 434271005250 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 434271005251 TPR motif; other site 434271005252 binding surface 434271005253 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 434271005254 TPR motif; other site 434271005255 binding surface 434271005256 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 434271005257 binding surface 434271005258 TPR motif; other site 434271005259 TPR repeat; Region: TPR_11; pfam13414 434271005260 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 434271005261 binding surface 434271005262 TPR motif; other site 434271005263 Tetratricopeptide repeat; Region: TPR_16; pfam13432 434271005264 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 434271005265 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 434271005266 LicD family; Region: LicD; pfam04991 434271005267 glycerol-3-phosphate cytidylyltransferase; Region: G3P_Cytidylyltransferase; cd02171 434271005268 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 434271005269 active site 434271005270 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 434271005271 polysaccharide export protein Wza; Provisional; Region: PRK15078 434271005272 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 434271005273 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 434271005274 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 434271005275 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 434271005276 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 434271005277 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 434271005278 Walker A/P-loop; other site 434271005279 ATP binding site [chemical binding]; other site 434271005280 Q-loop/lid; other site 434271005281 ABC transporter signature motif; other site 434271005282 Walker B; other site 434271005283 D-loop; other site 434271005284 H-loop/switch region; other site 434271005285 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 434271005286 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271005287 Walker A/P-loop; other site 434271005288 ATP binding site [chemical binding]; other site 434271005289 Q-loop/lid; other site 434271005290 ABC transporter signature motif; other site 434271005291 Walker B; other site 434271005292 D-loop; other site 434271005293 H-loop/switch region; other site 434271005294 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271005295 Walker A/P-loop; other site 434271005296 ATP binding site [chemical binding]; other site 434271005297 Q-loop/lid; other site 434271005298 ABC transporter signature motif; other site 434271005299 Walker B; other site 434271005300 D-loop; other site 434271005301 H-loop/switch region; other site 434271005302 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 434271005303 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 434271005304 putative active site [active] 434271005305 substrate binding site [chemical binding]; other site 434271005306 putative cosubstrate binding site; other site 434271005307 catalytic site [active] 434271005308 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 434271005309 substrate binding site [chemical binding]; other site 434271005310 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 434271005311 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 434271005312 hypothetical protein; Provisional; Region: PRK11568 434271005313 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 434271005314 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 434271005315 Cation transport protein; Region: TrkH; cl17365 434271005316 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 434271005317 Flavodoxin domain; Region: Flavodoxin_5; cl17428 434271005318 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 434271005319 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 434271005320 lipoyl synthase; Provisional; Region: PRK05481 434271005321 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 434271005322 FeS/SAM binding site; other site 434271005323 lipoate-protein ligase B; Provisional; Region: PRK14342 434271005324 hypothetical protein; Provisional; Region: PRK04998 434271005325 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 434271005326 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 434271005327 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 434271005328 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 434271005329 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 434271005330 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 434271005331 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 434271005332 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 434271005333 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 434271005334 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 434271005335 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 434271005336 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 434271005337 MutS domain I; Region: MutS_I; pfam01624 434271005338 MutS domain II; Region: MutS_II; pfam05188 434271005339 MutS domain III; Region: MutS_III; pfam05192 434271005340 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 434271005341 Walker A/P-loop; other site 434271005342 ATP binding site [chemical binding]; other site 434271005343 Q-loop/lid; other site 434271005344 ABC transporter signature motif; other site 434271005345 Walker B; other site 434271005346 D-loop; other site 434271005347 H-loop/switch region; other site 434271005348 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 434271005349 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 434271005350 Walker A/P-loop; other site 434271005351 ATP binding site [chemical binding]; other site 434271005352 Q-loop/lid; other site 434271005353 ABC transporter signature motif; other site 434271005354 Walker B; other site 434271005355 D-loop; other site 434271005356 H-loop/switch region; other site 434271005357 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 434271005358 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 434271005359 dimer interface [polypeptide binding]; other site 434271005360 conserved gate region; other site 434271005361 putative PBP binding loops; other site 434271005362 ABC-ATPase subunit interface; other site 434271005363 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 434271005364 Hemerythrin-like domain; Region: Hr-like; cd12108 434271005365 Fe binding site [ion binding]; other site 434271005366 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 434271005367 conserved hypothetical protein; Region: TIGR00743 434271005368 Protein of unknown function (DUF533); Region: DUF533; pfam04391 434271005369 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 434271005370 putative metal binding site [ion binding]; other site 434271005371 Uncharacterized conserved protein [Function unknown]; Region: COG1359 434271005372 UreD urease accessory protein; Region: UreD; cl00530 434271005373 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 434271005374 G1 box; other site 434271005375 GTP/Mg2+ binding site [chemical binding]; other site 434271005376 G2 box; other site 434271005377 Switch I region; other site 434271005378 G3 box; other site 434271005379 Switch II region; other site 434271005380 G4 box; other site 434271005381 G5 box; other site 434271005382 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 434271005383 UreF; Region: UreF; pfam01730 434271005384 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 434271005385 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 434271005386 dimer interface [polypeptide binding]; other site 434271005387 catalytic residues [active] 434271005388 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 434271005389 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 434271005390 putative C-terminal domain interface [polypeptide binding]; other site 434271005391 putative GSH binding site (G-site) [chemical binding]; other site 434271005392 putative dimer interface [polypeptide binding]; other site 434271005393 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 434271005394 N-terminal domain interface [polypeptide binding]; other site 434271005395 dimer interface [polypeptide binding]; other site 434271005396 substrate binding pocket (H-site) [chemical binding]; other site 434271005397 urease subunit alpha; Reviewed; Region: ureC; PRK13207 434271005398 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 434271005399 subunit interactions [polypeptide binding]; other site 434271005400 active site 434271005401 flap region; other site 434271005402 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 434271005403 gamma-beta subunit interface [polypeptide binding]; other site 434271005404 alpha-beta subunit interface [polypeptide binding]; other site 434271005405 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 434271005406 alpha-gamma subunit interface [polypeptide binding]; other site 434271005407 beta-gamma subunit interface [polypeptide binding]; other site 434271005408 Urea transporter; Region: UT; pfam03253 434271005409 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 434271005410 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 434271005411 Walker A/P-loop; other site 434271005412 ATP binding site [chemical binding]; other site 434271005413 Q-loop/lid; other site 434271005414 ABC transporter signature motif; other site 434271005415 Walker B; other site 434271005416 D-loop; other site 434271005417 H-loop/switch region; other site 434271005418 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 434271005419 cobalt transport protein CbiM; Validated; Region: PRK06265 434271005420 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 434271005421 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 434271005422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 434271005423 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 434271005424 dimerization interface [polypeptide binding]; other site 434271005425 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 434271005426 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 434271005427 transmembrane helices; other site 434271005428 TrkA-C domain; Region: TrkA_C; pfam02080 434271005429 TrkA-C domain; Region: TrkA_C; pfam02080 434271005430 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 434271005431 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 434271005432 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 434271005433 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 434271005434 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 434271005435 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 434271005436 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 434271005437 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 434271005438 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 434271005439 active site 434271005440 P-loop; other site 434271005441 phosphorylation site [posttranslational modification] 434271005442 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 434271005443 active site 434271005444 phosphorylation site [posttranslational modification] 434271005445 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 434271005446 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 434271005447 glutaminase active site [active] 434271005448 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 434271005449 dimer interface [polypeptide binding]; other site 434271005450 active site 434271005451 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 434271005452 dimer interface [polypeptide binding]; other site 434271005453 active site 434271005454 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 434271005455 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 434271005456 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 434271005457 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 434271005458 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 434271005459 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 434271005460 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 434271005461 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 434271005462 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 434271005463 FeS/SAM binding site; other site 434271005464 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 434271005465 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 434271005466 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 434271005467 catalytic residues [active] 434271005468 hinge region; other site 434271005469 alpha helical domain; other site 434271005470 hypothetical protein; Provisional; Region: PRK02119 434271005471 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 434271005472 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 434271005473 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 434271005474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 434271005475 YheO-like PAS domain; Region: PAS_6; pfam08348 434271005476 HTH domain; Region: HTH_22; pfam13309 434271005477 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 434271005478 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 434271005479 DsrH like protein; Region: DsrH; cl17347 434271005480 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 434271005481 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 434271005482 gamma subunit interface [polypeptide binding]; other site 434271005483 epsilon subunit interface [polypeptide binding]; other site 434271005484 LBP interface [polypeptide binding]; other site 434271005485 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 434271005486 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 434271005487 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 434271005488 alpha subunit interaction interface [polypeptide binding]; other site 434271005489 Walker A motif; other site 434271005490 ATP binding site [chemical binding]; other site 434271005491 Walker B motif; other site 434271005492 inhibitor binding site; inhibition site 434271005493 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 434271005494 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 434271005495 core domain interface [polypeptide binding]; other site 434271005496 delta subunit interface [polypeptide binding]; other site 434271005497 epsilon subunit interface [polypeptide binding]; other site 434271005498 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 434271005499 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 434271005500 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 434271005501 beta subunit interaction interface [polypeptide binding]; other site 434271005502 Walker A motif; other site 434271005503 ATP binding site [chemical binding]; other site 434271005504 Walker B motif; other site 434271005505 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 434271005506 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 434271005507 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 434271005508 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 434271005509 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 434271005510 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 434271005511 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 434271005512 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 434271005513 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 434271005514 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 434271005515 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 434271005516 S-adenosylmethionine binding site [chemical binding]; other site 434271005517 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 434271005518 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 434271005519 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 434271005520 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 434271005521 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 434271005522 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 434271005523 active site 434271005524 motif I; other site 434271005525 motif II; other site 434271005526 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 434271005527 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 434271005528 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 434271005529 substrate binding pocket [chemical binding]; other site 434271005530 membrane-bound complex binding site; other site 434271005531 hinge residues; other site 434271005532 hypothetical protein; Provisional; Region: PRK01752 434271005533 SEC-C motif; Region: SEC-C; pfam02810 434271005534 SEC-C motif; Region: SEC-C; pfam02810 434271005535 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 434271005536 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 434271005537 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 434271005538 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 434271005539 active pocket/dimerization site; other site 434271005540 active site 434271005541 phosphorylation site [posttranslational modification] 434271005542 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 434271005543 active site 434271005544 phosphorylation site [posttranslational modification] 434271005545 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 434271005546 fructuronate transporter; Provisional; Region: PRK10034; cl15264 434271005547 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 434271005548 Shikimate kinase; Region: SKI; pfam01202 434271005549 ATP-binding site [chemical binding]; other site 434271005550 Gluconate-6-phosphate binding site [chemical binding]; other site 434271005551 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 434271005552 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 434271005553 DNA binding site [nucleotide binding] 434271005554 domain linker motif; other site 434271005555 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 434271005556 putative ligand binding site [chemical binding]; other site 434271005557 putative dimerization interface [polypeptide binding]; other site 434271005558 transcriptional repressor RbsR; Provisional; Region: PRK10423 434271005559 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 434271005560 DNA binding site [nucleotide binding] 434271005561 domain linker motif; other site 434271005562 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 434271005563 D-ribose pyranase; Provisional; Region: PRK11797 434271005564 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 434271005565 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 434271005566 Walker A/P-loop; other site 434271005567 ATP binding site [chemical binding]; other site 434271005568 Q-loop/lid; other site 434271005569 ABC transporter signature motif; other site 434271005570 Walker B; other site 434271005571 D-loop; other site 434271005572 H-loop/switch region; other site 434271005573 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 434271005574 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 434271005575 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 434271005576 TM-ABC transporter signature motif; other site 434271005577 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 434271005578 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 434271005579 ligand binding site [chemical binding]; other site 434271005580 dimerization interface [polypeptide binding]; other site 434271005581 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 434271005582 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 434271005583 substrate binding site [chemical binding]; other site 434271005584 dimer interface [polypeptide binding]; other site 434271005585 ATP binding site [chemical binding]; other site 434271005586 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 434271005587 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 434271005588 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 434271005589 putative [Fe4-S4] binding site [ion binding]; other site 434271005590 putative molybdopterin cofactor binding site [chemical binding]; other site 434271005591 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 434271005592 putative molybdopterin cofactor binding site; other site 434271005593 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 434271005594 4Fe-4S binding domain; Region: Fer4; pfam00037 434271005595 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 434271005596 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 434271005597 ferredoxin-type protein NapF; Region: napF; TIGR00402 434271005598 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 434271005599 Methyltransferase domain; Region: Methyltransf_24; pfam13578 434271005600 Abi-like protein; Region: Abi_2; pfam07751 434271005601 Abi-like protein; Region: Abi_2; pfam07751 434271005602 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 434271005603 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 434271005604 dimerization interface [polypeptide binding]; other site 434271005605 ATP binding site [chemical binding]; other site 434271005606 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 434271005607 dimerization interface [polypeptide binding]; other site 434271005608 ATP binding site [chemical binding]; other site 434271005609 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 434271005610 putative active site [active] 434271005611 catalytic triad [active] 434271005612 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 434271005613 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 434271005614 DNA-binding site [nucleotide binding]; DNA binding site 434271005615 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 434271005616 L-fucose isomerase; Provisional; Region: fucI; PRK10991 434271005617 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 434271005618 hexamer (dimer of trimers) interface [polypeptide binding]; other site 434271005619 trimer interface [polypeptide binding]; other site 434271005620 substrate binding site [chemical binding]; other site 434271005621 Mn binding site [ion binding]; other site 434271005622 L-fuculokinase; Provisional; Region: PRK10331 434271005623 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 434271005624 nucleotide binding site [chemical binding]; other site 434271005625 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 434271005626 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 434271005627 intersubunit interface [polypeptide binding]; other site 434271005628 active site 434271005629 Zn2+ binding site [ion binding]; other site 434271005630 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 434271005631 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 434271005632 putative substrate translocation pore; other site 434271005633 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 434271005634 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 434271005635 dimer interface [polypeptide binding]; other site 434271005636 active site 434271005637 metal binding site [ion binding]; metal-binding site 434271005638 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 434271005639 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 434271005640 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 434271005641 dimer interface [polypeptide binding]; other site 434271005642 conserved gate region; other site 434271005643 putative PBP binding loops; other site 434271005644 ABC-ATPase subunit interface; other site 434271005645 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 434271005646 dimer interface [polypeptide binding]; other site 434271005647 conserved gate region; other site 434271005648 putative PBP binding loops; other site 434271005649 ABC-ATPase subunit interface; other site 434271005650 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 434271005651 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271005652 Walker A/P-loop; other site 434271005653 ATP binding site [chemical binding]; other site 434271005654 Q-loop/lid; other site 434271005655 ABC transporter signature motif; other site 434271005656 Walker B; other site 434271005657 D-loop; other site 434271005658 H-loop/switch region; other site 434271005659 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 434271005660 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 434271005661 substrate binding pocket [chemical binding]; other site 434271005662 membrane-bound complex binding site; other site 434271005663 hinge residues; other site 434271005664 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 434271005665 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 434271005666 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 434271005667 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 434271005668 active site 434271005669 dimer interface [polypeptide binding]; other site 434271005670 magnesium binding site [ion binding]; other site 434271005671 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 434271005672 active site 434271005673 phosphorylation site [posttranslational modification] 434271005674 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 434271005675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 434271005676 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 434271005677 active site 434271005678 P-loop; other site 434271005679 phosphorylation site [posttranslational modification] 434271005680 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 434271005681 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 434271005682 transcriptional repressor UlaR; Provisional; Region: PRK13509 434271005683 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 434271005684 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 434271005685 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 434271005686 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 434271005687 AP (apurinic/apyrimidinic) site pocket; other site 434271005688 DNA interaction; other site 434271005689 Metal-binding active site; metal-binding site 434271005690 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 434271005691 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 434271005692 intersubunit interface [polypeptide binding]; other site 434271005693 active site 434271005694 Zn2+ binding site [ion binding]; other site 434271005695 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 434271005696 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 434271005697 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 434271005698 non-specific DNA binding site [nucleotide binding]; other site 434271005699 salt bridge; other site 434271005700 sequence-specific DNA binding site [nucleotide binding]; other site 434271005701 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 434271005702 Protein of unknown function (DUF560); Region: DUF560; pfam04575 434271005703 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 434271005704 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 434271005705 NADP binding site [chemical binding]; other site 434271005706 homopentamer interface [polypeptide binding]; other site 434271005707 substrate binding site [chemical binding]; other site 434271005708 active site 434271005709 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 434271005710 active site 434271005711 catalytic residues [active] 434271005712 metal binding site [ion binding]; metal-binding site 434271005713 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 434271005714 DNA protecting protein DprA; Region: dprA; TIGR00732 434271005715 Predicted membrane protein [Function unknown]; Region: COG1297 434271005716 putative oligopeptide transporter, OPT family; Region: TIGR00733 434271005717 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 434271005718 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 434271005719 active site 434271005720 P-loop; other site 434271005721 phosphorylation site [posttranslational modification] 434271005722 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 434271005723 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 434271005724 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 434271005725 putative homodimer interface [polypeptide binding]; other site 434271005726 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 434271005727 heterodimer interface [polypeptide binding]; other site 434271005728 homodimer interface [polypeptide binding]; other site 434271005729 Ribosomal protein L11/L12; Region: RL11; smart00649 434271005730 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 434271005731 putative thiostrepton binding site; other site 434271005732 23S rRNA interface [nucleotide binding]; other site 434271005733 L7/L12 interface [polypeptide binding]; other site 434271005734 L25 interface [polypeptide binding]; other site 434271005735 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 434271005736 mRNA/rRNA interface [nucleotide binding]; other site 434271005737 similar to 50S ribosomal protein L10 434271005738 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 434271005739 core dimer interface [polypeptide binding]; other site 434271005740 peripheral dimer interface [polypeptide binding]; other site 434271005741 L10 interface [polypeptide binding]; other site 434271005742 L11 interface [polypeptide binding]; other site 434271005743 putative EF-Tu interaction site [polypeptide binding]; other site 434271005744 putative EF-G interaction site [polypeptide binding]; other site 434271005745 HipA N-terminal domain; Region: Couple_hipA; pfam13657 434271005746 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 434271005747 HipA-like N-terminal domain; Region: HipA_N; pfam07805 434271005748 HipA-like C-terminal domain; Region: HipA_C; pfam07804 434271005749 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 434271005750 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 434271005751 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 434271005752 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 434271005753 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 434271005754 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 434271005755 RPB3 interaction site [polypeptide binding]; other site 434271005756 RPB1 interaction site [polypeptide binding]; other site 434271005757 RPB11 interaction site [polypeptide binding]; other site 434271005758 RPB10 interaction site [polypeptide binding]; other site 434271005759 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 434271005760 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 434271005761 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 434271005762 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 434271005763 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 434271005764 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 434271005765 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 434271005766 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 434271005767 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 434271005768 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 434271005769 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 434271005770 DNA binding site [nucleotide binding] 434271005771 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 434271005772 AAA domain; Region: AAA_21; pfam13304 434271005773 AAA domain; Region: AAA_21; pfam13304 434271005774 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 434271005775 Walker B; other site 434271005776 D-loop; other site 434271005777 H-loop/switch region; other site 434271005778 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 434271005779 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 434271005780 oligomeric interface; other site 434271005781 putative active site [active] 434271005782 homodimer interface [polypeptide binding]; other site 434271005783 Protein of unknown function, DUF417; Region: DUF417; cl01162 434271005784 Uncharacterized protein domain (DUF2202); Region: DUF2202; pfam09968 434271005785 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 434271005786 diiron binding motif [ion binding]; other site 434271005787 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 434271005788 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 434271005789 Walker A motif; other site 434271005790 ATP binding site [chemical binding]; other site 434271005791 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 434271005792 Walker B motif; other site 434271005793 arginine finger; other site 434271005794 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 434271005795 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 434271005796 active site 434271005797 HslU subunit interaction site [polypeptide binding]; other site 434271005798 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 434271005799 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 434271005800 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 434271005801 putative metal binding site [ion binding]; other site 434271005802 adenine DNA glycosylase; Provisional; Region: PRK10880 434271005803 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 434271005804 minor groove reading motif; other site 434271005805 helix-hairpin-helix signature motif; other site 434271005806 substrate binding pocket [chemical binding]; other site 434271005807 active site 434271005808 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 434271005809 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 434271005810 DNA binding and oxoG recognition site [nucleotide binding] 434271005811 oxidative damage protection protein; Provisional; Region: PRK05408 434271005812 murein transglycosylase C; Provisional; Region: mltC; PRK11671 434271005813 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 434271005814 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 434271005815 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 434271005816 N-acetyl-D-glucosamine binding site [chemical binding]; other site 434271005817 catalytic residue [active] 434271005818 signal recognition particle protein; Provisional; Region: PRK10867 434271005819 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 434271005820 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 434271005821 P loop; other site 434271005822 GTP binding site [chemical binding]; other site 434271005823 Signal peptide binding domain; Region: SRP_SPB; pfam02978 434271005824 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 434271005825 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 434271005826 active site 434271005827 metal binding site [ion binding]; metal-binding site 434271005828 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 434271005829 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 434271005830 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 434271005831 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 434271005832 sequence-specific DNA binding site [nucleotide binding]; other site 434271005833 salt bridge; other site 434271005834 Mg chelatase-related protein; Region: TIGR00368 434271005835 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 434271005836 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 434271005837 Walker A motif; other site 434271005838 ATP binding site [chemical binding]; other site 434271005839 Walker B motif; other site 434271005840 arginine finger; other site 434271005841 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 434271005842 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 434271005843 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 434271005844 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 434271005845 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 434271005846 Putative serine esterase (DUF676); Region: DUF676; pfam05057 434271005847 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 434271005848 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 434271005849 dimer interface [polypeptide binding]; other site 434271005850 tetramer interface [polypeptide binding]; other site 434271005851 PYR/PP interface [polypeptide binding]; other site 434271005852 TPP binding site [chemical binding]; other site 434271005853 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 434271005854 TPP-binding site; other site 434271005855 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 434271005856 active site 434271005857 catalytic triad [active] 434271005858 oxyanion hole [active] 434271005859 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 434271005860 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 434271005861 putative active site cavity [active] 434271005862 N-acetylmannosamine kinase; Provisional; Region: PRK05082 434271005863 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 434271005864 nucleotide binding site [chemical binding]; other site 434271005865 N-acetylneuraminate lyase; Provisional; Region: PRK04147 434271005866 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 434271005867 inhibitor site; inhibition site 434271005868 active site 434271005869 dimer interface [polypeptide binding]; other site 434271005870 catalytic residue [active] 434271005871 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 434271005872 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 434271005873 active site 434271005874 trimer interface [polypeptide binding]; other site 434271005875 allosteric site; other site 434271005876 active site lid [active] 434271005877 hexamer (dimer of trimers) interface [polypeptide binding]; other site 434271005878 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 434271005879 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 434271005880 active site 434271005881 dimer interface [polypeptide binding]; other site 434271005882 fumarate hydratase; Reviewed; Region: fumC; PRK00485 434271005883 Class II fumarases; Region: Fumarase_classII; cd01362 434271005884 active site 434271005885 tetramer interface [polypeptide binding]; other site 434271005886 TfoX N-terminal domain; Region: TfoX_N; pfam04993 434271005887 TfoX C-terminal domain; Region: TfoX_C; pfam04994 434271005888 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 434271005889 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 434271005890 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 434271005891 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 434271005892 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 434271005893 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 434271005894 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 434271005895 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 434271005896 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 434271005897 protein-rRNA interface [nucleotide binding]; other site 434271005898 putative translocon binding site; other site 434271005899 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 434271005900 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 434271005901 G-X-X-G motif; other site 434271005902 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 434271005903 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 434271005904 23S rRNA interface [nucleotide binding]; other site 434271005905 5S rRNA interface [nucleotide binding]; other site 434271005906 putative antibiotic binding site [chemical binding]; other site 434271005907 L25 interface [polypeptide binding]; other site 434271005908 L27 interface [polypeptide binding]; other site 434271005909 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 434271005910 23S rRNA interface [nucleotide binding]; other site 434271005911 putative translocon interaction site; other site 434271005912 signal recognition particle (SRP54) interaction site; other site 434271005913 L23 interface [polypeptide binding]; other site 434271005914 trigger factor interaction site; other site 434271005915 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 434271005916 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 434271005917 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 434271005918 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 434271005919 RNA binding site [nucleotide binding]; other site 434271005920 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 434271005921 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 434271005922 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 434271005923 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 434271005924 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 434271005925 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 434271005926 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 434271005927 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 434271005928 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 434271005929 23S rRNA interface [nucleotide binding]; other site 434271005930 L21e interface [polypeptide binding]; other site 434271005931 5S rRNA interface [nucleotide binding]; other site 434271005932 L27 interface [polypeptide binding]; other site 434271005933 L5 interface [polypeptide binding]; other site 434271005934 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 434271005935 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 434271005936 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 434271005937 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 434271005938 23S rRNA binding site [nucleotide binding]; other site 434271005939 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 434271005940 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 434271005941 SecY translocase; Region: SecY; pfam00344 434271005942 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 434271005943 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 434271005944 30S ribosomal protein S13; Region: bact_S13; TIGR03631 434271005945 30S ribosomal protein S11; Validated; Region: PRK05309 434271005946 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 434271005947 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 434271005948 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 434271005949 RNA binding surface [nucleotide binding]; other site 434271005950 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 434271005951 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 434271005952 alphaNTD homodimer interface [polypeptide binding]; other site 434271005953 alphaNTD - beta interaction site [polypeptide binding]; other site 434271005954 alphaNTD - beta' interaction site [polypeptide binding]; other site 434271005955 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 434271005956 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 434271005957 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 434271005958 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 434271005959 RimM N-terminal domain; Region: RimM; pfam01782 434271005960 PRC-barrel domain; Region: PRC; pfam05239 434271005961 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 434271005962 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 434271005963 Cupin superfamily protein; Region: Cupin_4; pfam08007 434271005964 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 434271005965 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 434271005966 intersubunit interface [polypeptide binding]; other site 434271005967 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 434271005968 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 434271005969 ABC-ATPase subunit interface; other site 434271005970 dimer interface [polypeptide binding]; other site 434271005971 putative PBP binding regions; other site 434271005972 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 434271005973 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 434271005974 Walker A/P-loop; other site 434271005975 ATP binding site [chemical binding]; other site 434271005976 Q-loop/lid; other site 434271005977 ABC transporter signature motif; other site 434271005978 Walker B; other site 434271005979 D-loop; other site 434271005980 H-loop/switch region; other site 434271005981 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 434271005982 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 434271005983 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 434271005984 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 434271005985 intersubunit interface [polypeptide binding]; other site 434271005986 ATP-grasp domain; Region: ATP-grasp_4; cl17255 434271005987 chaperone protein TorD; Validated; Region: torD; PRK04976 434271005988 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 434271005989 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 434271005990 molybdopterin cofactor binding site [chemical binding]; other site 434271005991 substrate binding site [chemical binding]; other site 434271005992 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 434271005993 molybdopterin cofactor binding site; other site 434271005994 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 434271005995 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 434271005996 dimer interface [polypeptide binding]; other site 434271005997 motif 1; other site 434271005998 active site 434271005999 motif 2; other site 434271006000 motif 3; other site 434271006001 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 434271006002 putative active site [active] 434271006003 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 434271006004 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 434271006005 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 434271006006 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 434271006007 active site 434271006008 Int/Topo IB signature motif; other site 434271006009 Protein of unknown function (DUF454); Region: DUF454; cl01063 434271006010 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 434271006011 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 434271006012 active site 434271006013 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 434271006014 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 434271006015 putative active site [active] 434271006016 putative metal binding site [ion binding]; other site 434271006017 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 434271006018 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 434271006019 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 434271006020 active site 434271006021 MULE transposase domain; Region: MULE; pfam10551 434271006022 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 434271006023 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 434271006024 Walker A/P-loop; other site 434271006025 ATP binding site [chemical binding]; other site 434271006026 Q-loop/lid; other site 434271006027 ABC transporter signature motif; other site 434271006028 Walker B; other site 434271006029 D-loop; other site 434271006030 H-loop/switch region; other site 434271006031 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 434271006032 FtsX-like permease family; Region: FtsX; pfam02687 434271006033 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 434271006034 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 434271006035 HlyD family secretion protein; Region: HlyD_3; pfam13437 434271006036 MltA-interacting protein MipA; Region: MipA; cl01504 434271006037 DNA polymerase III subunit delta'; Validated; Region: PRK06871 434271006038 DNA polymerase III subunit delta'; Validated; Region: PRK08485 434271006039 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 434271006040 thymidylate kinase; Validated; Region: tmk; PRK00698 434271006041 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 434271006042 TMP-binding site; other site 434271006043 ATP-binding site [chemical binding]; other site 434271006044 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 434271006045 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 434271006046 dimerization interface [polypeptide binding]; other site 434271006047 acyl carrier protein; Provisional; Region: acpP; PRK00982 434271006048 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 434271006049 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 434271006050 substrate binding site [chemical binding]; other site 434271006051 hexamer interface [polypeptide binding]; other site 434271006052 metal binding site [ion binding]; metal-binding site 434271006053 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 434271006054 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 434271006055 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 434271006056 Transglycosylase; Region: Transgly; pfam00912 434271006057 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 434271006058 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 434271006059 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 434271006060 substrate binding site [chemical binding]; other site 434271006061 oxyanion hole (OAH) forming residues; other site 434271006062 trimer interface [polypeptide binding]; other site 434271006063 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 434271006064 Zn2+ binding site [ion binding]; other site 434271006065 Mg2+ binding site [ion binding]; other site 434271006066 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 434271006067 synthetase active site [active] 434271006068 NTP binding site [chemical binding]; other site 434271006069 metal binding site [ion binding]; metal-binding site 434271006070 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 434271006071 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 434271006072 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 434271006073 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 434271006074 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 434271006075 Pathogenicity locus; Region: Cdd1; pfam11731 434271006076 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 434271006077 generic binding surface II; other site 434271006078 ssDNA binding site; other site 434271006079 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 434271006080 ATP binding site [chemical binding]; other site 434271006081 putative Mg++ binding site [ion binding]; other site 434271006082 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 434271006083 nucleotide binding region [chemical binding]; other site 434271006084 ATP-binding site [chemical binding]; other site 434271006085 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 434271006086 oligomeric interface; other site 434271006087 putative active site [active] 434271006088 homodimer interface [polypeptide binding]; other site 434271006089 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 434271006090 prolyl-tRNA synthetase; Provisional; Region: PRK09194 434271006091 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 434271006092 dimer interface [polypeptide binding]; other site 434271006093 motif 1; other site 434271006094 active site 434271006095 motif 2; other site 434271006096 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 434271006097 putative deacylase active site [active] 434271006098 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 434271006099 active site 434271006100 motif 3; other site 434271006101 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 434271006102 anticodon binding site; other site 434271006103 Putative zinc-finger; Region: zf-HC2; pfam13490 434271006104 RNA polymerase sigma factor; Provisional; Region: PRK12530 434271006105 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 434271006106 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 434271006107 DNA binding residues [nucleotide binding] 434271006108 TMAO/DMSO reductase; Reviewed; Region: PRK05363 434271006109 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 434271006110 Moco binding site; other site 434271006111 metal coordination site [ion binding]; other site 434271006112 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 434271006113 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 434271006114 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 434271006115 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 434271006116 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 434271006117 DNA binding residues [nucleotide binding] 434271006118 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 434271006119 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 434271006120 putative substrate translocation pore; other site 434271006121 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 434271006122 Toxin YafO, type II toxin-antitoxin system; Region: YafO_toxin; cl08066 434271006123 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 434271006124 dimer interface [polypeptide binding]; other site 434271006125 active site 434271006126 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 434271006127 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 434271006128 putative DNA binding site [nucleotide binding]; other site 434271006129 putative Zn2+ binding site [ion binding]; other site 434271006130 AsnC family; Region: AsnC_trans_reg; pfam01037 434271006131 uridine phosphorylase; Provisional; Region: PRK11178 434271006132 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 434271006133 Chorismate lyase; Region: Chor_lyase; cl01230 434271006134 glutamate racemase; Provisional; Region: PRK00865 434271006135 sulfite reductase subunit beta; Provisional; Region: PRK13504 434271006136 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 434271006137 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 434271006138 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 434271006139 Flavodoxin; Region: Flavodoxin_1; pfam00258 434271006140 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 434271006141 FAD binding pocket [chemical binding]; other site 434271006142 FAD binding motif [chemical binding]; other site 434271006143 catalytic residues [active] 434271006144 NAD binding pocket [chemical binding]; other site 434271006145 phosphate binding motif [ion binding]; other site 434271006146 beta-alpha-beta structure motif; other site 434271006147 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 434271006148 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 434271006149 CysD dimerization site [polypeptide binding]; other site 434271006150 G1 box; other site 434271006151 putative GEF interaction site [polypeptide binding]; other site 434271006152 GTP/Mg2+ binding site [chemical binding]; other site 434271006153 Switch I region; other site 434271006154 G2 box; other site 434271006155 G3 box; other site 434271006156 Switch II region; other site 434271006157 G4 box; other site 434271006158 G5 box; other site 434271006159 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 434271006160 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 434271006161 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 434271006162 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 434271006163 Active Sites [active] 434271006164 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 434271006165 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 434271006166 Active Sites [active] 434271006167 siroheme synthase; Provisional; Region: cysG; PRK10637 434271006168 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 434271006169 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 434271006170 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 434271006171 active site 434271006172 SAM binding site [chemical binding]; other site 434271006173 homodimer interface [polypeptide binding]; other site 434271006174 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 434271006175 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 434271006176 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 434271006177 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 434271006178 dimer interface [polypeptide binding]; other site 434271006179 conserved gate region; other site 434271006180 putative PBP binding loops; other site 434271006181 ABC-ATPase subunit interface; other site 434271006182 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 434271006183 dimer interface [polypeptide binding]; other site 434271006184 conserved gate region; other site 434271006185 putative PBP binding loops; other site 434271006186 ABC-ATPase subunit interface; other site 434271006187 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 434271006188 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 434271006189 Walker A/P-loop; other site 434271006190 ATP binding site [chemical binding]; other site 434271006191 Q-loop/lid; other site 434271006192 ABC transporter signature motif; other site 434271006193 Walker B; other site 434271006194 D-loop; other site 434271006195 H-loop/switch region; other site 434271006196 TOBE-like domain; Region: TOBE_3; pfam12857 434271006197 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 434271006198 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 434271006199 phosphate binding site [ion binding]; other site 434271006200 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 434271006201 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 434271006202 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 434271006203 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 434271006204 FAD binding domain; Region: FAD_binding_4; pfam01565 434271006205 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 434271006206 outer membrane protein A; Reviewed; Region: PRK10808 434271006207 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 434271006208 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 434271006209 ligand binding site [chemical binding]; other site 434271006210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 434271006211 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271006212 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271006213 putative transposase OrfB; Reviewed; Region: PHA02517 434271006214 HTH-like domain; Region: HTH_21; pfam13276 434271006215 Integrase core domain; Region: rve; pfam00665 434271006216 Integrase core domain; Region: rve_2; pfam13333 434271006217 ketol-acid reductoisomerase; Validated; Region: PRK05225 434271006218 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 434271006219 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 434271006220 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 434271006221 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 434271006222 Paraquat-inducible protein A; Region: PqiA; pfam04403 434271006223 Paraquat-inducible protein A; Region: PqiA; pfam04403 434271006224 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 434271006225 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 434271006226 MerT mercuric transport protein; Region: MerT; cl03578 434271006227 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 434271006228 metal-binding site [ion binding] 434271006229 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 434271006230 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 434271006231 dimer interface [polypeptide binding]; other site 434271006232 active site 434271006233 metal binding site [ion binding]; metal-binding site 434271006234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 434271006235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 434271006236 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 434271006237 dimerization interface [polypeptide binding]; other site 434271006238 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 434271006239 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 434271006240 trimer interface [polypeptide binding]; other site 434271006241 active site 434271006242 substrate binding site [chemical binding]; other site 434271006243 CoA binding site [chemical binding]; other site 434271006244 Dehydroquinase class II; Region: DHquinase_II; pfam01220 434271006245 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 434271006246 active site 434271006247 trimer interface [polypeptide binding]; other site 434271006248 dimer interface [polypeptide binding]; other site 434271006249 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 434271006250 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 434271006251 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 434271006252 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 434271006253 carboxyltransferase (CT) interaction site; other site 434271006254 biotinylation site [posttranslational modification]; other site 434271006255 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 434271006256 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 434271006257 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 434271006258 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 434271006259 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 434271006260 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 434271006261 GTP binding site; other site 434271006262 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 434271006263 Walker A motif; other site 434271006264 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 434271006265 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 434271006266 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 434271006267 catalytic residues [active] 434271006268 hinge region; other site 434271006269 alpha helical domain; other site 434271006270 Sporulation related domain; Region: SPOR; pfam05036 434271006271 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 434271006272 S-adenosylmethionine binding site [chemical binding]; other site 434271006273 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 434271006274 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 434271006275 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 434271006276 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 434271006277 metal binding site [ion binding]; metal-binding site 434271006278 dimer interface [polypeptide binding]; other site 434271006279 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 434271006280 ArsC family; Region: ArsC; pfam03960 434271006281 putative catalytic residues [active] 434271006282 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 434271006283 dihydropteroate synthase; Region: DHPS; TIGR01496 434271006284 substrate binding pocket [chemical binding]; other site 434271006285 dimer interface [polypeptide binding]; other site 434271006286 inhibitor binding site; inhibition site 434271006287 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 434271006288 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 434271006289 RNA binding surface [nucleotide binding]; other site 434271006290 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 434271006291 active site 434271006292 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 434271006293 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 434271006294 Conserved TM helix; Region: TM_helix; pfam05552 434271006295 mechanosensitive channel MscS; Provisional; Region: PRK10334 434271006296 Mechanosensitive ion channel; Region: MS_channel; pfam00924 434271006297 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 434271006298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 434271006299 Putative esterase; Region: Esterase; pfam00756 434271006300 protease3; Provisional; Region: PRK15101 434271006301 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 434271006302 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 434271006303 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 434271006304 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 434271006305 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 434271006306 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 434271006307 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 434271006308 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 434271006309 active site 1 [active] 434271006310 dimer interface [polypeptide binding]; other site 434271006311 active site 2 [active] 434271006312 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 434271006313 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 434271006314 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 434271006315 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 434271006316 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 434271006317 active site 434271006318 HIGH motif; other site 434271006319 dimer interface [polypeptide binding]; other site 434271006320 KMSKS motif; other site 434271006321 phosphoglycolate phosphatase; Provisional; Region: PRK13222 434271006322 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 434271006323 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 434271006324 motif II; other site 434271006325 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 434271006326 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 434271006327 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 434271006328 putative active site [active] 434271006329 Ap4A binding site [chemical binding]; other site 434271006330 nudix motif; other site 434271006331 putative metal binding site [ion binding]; other site 434271006332 Peptidase family M48; Region: Peptidase_M48; pfam01435 434271006333 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 434271006334 dimer interface [polypeptide binding]; other site 434271006335 substrate binding site [chemical binding]; other site 434271006336 metal binding sites [ion binding]; metal-binding site 434271006337 similar to hypothetical protein 434271006338 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 434271006339 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 434271006340 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 434271006341 putative transposase OrfB; Reviewed; Region: PHA02517 434271006342 HTH-like domain; Region: HTH_21; pfam13276 434271006343 Integrase core domain; Region: rve; pfam00665 434271006344 Integrase core domain; Region: rve_2; pfam13333 434271006345 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 434271006346 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271006347 Helix-turn-helix domain; Region: HTH_28; pfam13518 434271006348 Transposase, Mutator family; Region: Transposase_mut; pfam00872 434271006349 chaperone protein DnaJ; Provisional; Region: PRK10767 434271006350 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 434271006351 HSP70 interaction site [polypeptide binding]; other site 434271006352 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 434271006353 substrate binding site [polypeptide binding]; other site 434271006354 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 434271006355 Zn binding sites [ion binding]; other site 434271006356 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 434271006357 dimer interface [polypeptide binding]; other site 434271006358 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 434271006359 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 434271006360 nucleotide binding site [chemical binding]; other site 434271006361 xylulokinase; Provisional; Region: PRK15027 434271006362 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 434271006363 N- and C-terminal domain interface [polypeptide binding]; other site 434271006364 active site 434271006365 MgATP binding site [chemical binding]; other site 434271006366 catalytic site [active] 434271006367 metal binding site [ion binding]; metal-binding site 434271006368 xylulose binding site [chemical binding]; other site 434271006369 homodimer interface [polypeptide binding]; other site 434271006370 xylose isomerase; Provisional; Region: PRK05474 434271006371 xylose isomerase; Region: xylose_isom_A; TIGR02630 434271006372 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 434271006373 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 434271006374 putative ligand binding site [chemical binding]; other site 434271006375 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 434271006376 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 434271006377 Walker A/P-loop; other site 434271006378 ATP binding site [chemical binding]; other site 434271006379 Q-loop/lid; other site 434271006380 ABC transporter signature motif; other site 434271006381 Walker B; other site 434271006382 D-loop; other site 434271006383 H-loop/switch region; other site 434271006384 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 434271006385 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 434271006386 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 434271006387 TM-ABC transporter signature motif; other site 434271006388 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 434271006389 putative dimerization interface [polypeptide binding]; other site 434271006390 Transcriptional regulators [Transcription]; Region: PurR; COG1609 434271006391 putative ligand binding site [chemical binding]; other site 434271006392 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 434271006393 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 434271006394 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 434271006395 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 434271006396 active site 434271006397 Zn binding site [ion binding]; other site 434271006398 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 434271006399 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 434271006400 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 434271006401 Na binding site [ion binding]; other site 434271006402 Protein of unknown function (DUF997); Region: DUF997; pfam06196 434271006403 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 434271006404 dimerization interface [polypeptide binding]; other site 434271006405 DNA binding site [nucleotide binding] 434271006406 corepressor binding sites; other site 434271006407 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 434271006408 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 434271006409 active site 434271006410 phosphate binding residues; other site 434271006411 catalytic residues [active] 434271006412 Site-specific recombinase; Region: SpecificRecomb; cl15411 434271006413 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 434271006414 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 434271006415 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 434271006416 putative active site [active] 434271006417 putative metal binding site [ion binding]; other site 434271006418 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 434271006419 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 434271006420 DXD motif; other site 434271006421 PgaD-like protein; Region: PgaD; cl14676 434271006422 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 434271006423 triosephosphate isomerase; Provisional; Region: PRK14567 434271006424 substrate binding site [chemical binding]; other site 434271006425 dimer interface [polypeptide binding]; other site 434271006426 catalytic triad [active] 434271006427 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 434271006428 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 434271006429 Permutation of conserved domain; other site 434271006430 active site 434271006431 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 434271006432 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 434271006433 Predicted membrane protein [Function unknown]; Region: COG1238 434271006434 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 434271006435 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 434271006436 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 434271006437 Peptidase family M23; Region: Peptidase_M23; pfam01551 434271006438 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 434271006439 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 434271006440 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 434271006441 metal binding site [ion binding]; metal-binding site 434271006442 dimer interface [polypeptide binding]; other site 434271006443 hypothetical protein; Provisional; Region: PRK10519 434271006444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 434271006445 Nucleoside recognition; Region: Gate; pfam07670 434271006446 ferrochelatase; Reviewed; Region: hemH; PRK00035 434271006447 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 434271006448 C-terminal domain interface [polypeptide binding]; other site 434271006449 active site 434271006450 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 434271006451 active site 434271006452 N-terminal domain interface [polypeptide binding]; other site 434271006453 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 434271006454 ribonuclease P; Reviewed; Region: rnpA; PRK01732 434271006455 hypothetical protein; Validated; Region: PRK00041 434271006456 glutamine synthetase; Provisional; Region: glnA; PRK09469 434271006457 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 434271006458 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 434271006459 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 434271006460 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 434271006461 active site 434271006462 metal binding site [ion binding]; metal-binding site 434271006463 hexamer interface [polypeptide binding]; other site 434271006464 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 434271006465 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 434271006466 dimer interface [polypeptide binding]; other site 434271006467 active site 434271006468 ADP-ribose binding site [chemical binding]; other site 434271006469 nudix motif; other site 434271006470 metal binding site [ion binding]; metal-binding site 434271006471 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 434271006472 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 434271006473 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 434271006474 Predicted membrane protein [Function unknown]; Region: COG2510 434271006475 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 434271006476 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 434271006477 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 434271006478 putative sugar binding sites [chemical binding]; other site 434271006479 Q-X-W motif; other site 434271006480 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 434271006481 putative active site [active] 434271006482 dimerization interface [polypeptide binding]; other site 434271006483 putative tRNAtyr binding site [nucleotide binding]; other site 434271006484 hypothetical protein; Reviewed; Region: PRK01637 434271006485 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 434271006486 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 434271006487 putative catalytic cysteine [active] 434271006488 similar to hemoglobin receptor precursor 434271006489 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 434271006490 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 434271006491 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 434271006492 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 434271006493 ATP binding site [chemical binding]; other site 434271006494 Mg2+ binding site [ion binding]; other site 434271006495 G-X-G motif; other site 434271006496 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 434271006497 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 434271006498 ATP binding site [chemical binding]; other site 434271006499 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 434271006500 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 434271006501 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 434271006502 NAD binding site [chemical binding]; other site 434271006503 substrate binding site [chemical binding]; other site 434271006504 catalytic Zn binding site [ion binding]; other site 434271006505 tetramer interface [polypeptide binding]; other site 434271006506 structural Zn binding site [ion binding]; other site 434271006507 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 434271006508 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 434271006509 bacterial Hfq-like; Region: Hfq; cd01716 434271006510 hexamer interface [polypeptide binding]; other site 434271006511 Sm1 motif; other site 434271006512 RNA binding site [nucleotide binding]; other site 434271006513 Sm2 motif; other site 434271006514 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 434271006515 HflX GTPase family; Region: HflX; cd01878 434271006516 G1 box; other site 434271006517 GTP/Mg2+ binding site [chemical binding]; other site 434271006518 Switch I region; other site 434271006519 G2 box; other site 434271006520 G3 box; other site 434271006521 Switch II region; other site 434271006522 G4 box; other site 434271006523 G5 box; other site 434271006524 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 434271006525 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 434271006526 metal binding site [ion binding]; metal-binding site 434271006527 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 434271006528 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 434271006529 ligand binding site [chemical binding]; other site 434271006530 flexible hinge region; other site 434271006531 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 434271006532 putative switch regulator; other site 434271006533 non-specific DNA interactions [nucleotide binding]; other site 434271006534 DNA binding site [nucleotide binding] 434271006535 sequence specific DNA binding site [nucleotide binding]; other site 434271006536 putative cAMP binding site [chemical binding]; other site 434271006537 hypothetical protein; Provisional; Region: PRK04966 434271006538 division inhibitor protein; Provisional; Region: slmA; PRK09480 434271006539 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 434271006540 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 434271006541 trimer interface [polypeptide binding]; other site 434271006542 active site 434271006543 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 434271006544 Flavoprotein; Region: Flavoprotein; pfam02441 434271006545 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 434271006546 hypothetical protein; Reviewed; Region: PRK00024 434271006547 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 434271006548 MPN+ (JAMM) motif; other site 434271006549 Zinc-binding site [ion binding]; other site 434271006550 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 434271006551 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 434271006552 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 434271006553 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 434271006554 inhibitor-cofactor binding pocket; inhibition site 434271006555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271006556 catalytic residue [active] 434271006557 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 434271006558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271006559 catalytic residue [active] 434271006560 hypothetical protein; Provisional; Region: PRK11018 434271006561 CPxP motif; other site 434271006562 putative inner membrane protein; Provisional; Region: PRK11099 434271006563 hypothetical protein; Provisional; Region: PRK11027 434271006564 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 434271006565 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 434271006566 S-adenosylmethionine binding site [chemical binding]; other site 434271006567 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 434271006568 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 434271006569 Cl binding site [ion binding]; other site 434271006570 oligomer interface [polypeptide binding]; other site 434271006571 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 434271006572 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 434271006573 S-adenosylmethionine binding site [chemical binding]; other site 434271006574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 434271006575 SCP-2 sterol transfer family; Region: SCP2; pfam02036 434271006576 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 434271006577 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 434271006578 twin arginine translocase protein A; Provisional; Region: tatA; PRK01833 434271006579 sec-independent translocase; Provisional; Region: PRK01770 434271006580 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 434271006581 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 434271006582 dimer interface [polypeptide binding]; other site 434271006583 allosteric magnesium binding site [ion binding]; other site 434271006584 active site 434271006585 aspartate-rich active site metal binding site; other site 434271006586 Schiff base residues; other site 434271006587 Predicted membrane protein [Function unknown]; Region: COG3671 434271006588 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 434271006589 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 434271006590 DNA binding site [nucleotide binding] 434271006591 catalytic residue [active] 434271006592 H2TH interface [polypeptide binding]; other site 434271006593 putative catalytic residues [active] 434271006594 turnover-facilitating residue; other site 434271006595 intercalation triad [nucleotide binding]; other site 434271006596 8OG recognition residue [nucleotide binding]; other site 434271006597 putative reading head residues; other site 434271006598 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 434271006599 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 434271006600 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 434271006601 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 434271006602 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 434271006603 NAD(P) binding site [chemical binding]; other site 434271006604 homotetramer interface [polypeptide binding]; other site 434271006605 homodimer interface [polypeptide binding]; other site 434271006606 active site 434271006607 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 434271006608 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 434271006609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 434271006610 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 434271006611 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 434271006612 substrate binding pocket [chemical binding]; other site 434271006613 chain length determination region; other site 434271006614 substrate-Mg2+ binding site; other site 434271006615 catalytic residues [active] 434271006616 aspartate-rich region 1; other site 434271006617 active site lid residues [active] 434271006618 aspartate-rich region 2; other site 434271006619 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 434271006620 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 434271006621 active site 434271006622 nucleophile elbow; other site 434271006623 Predicted flavoprotein [General function prediction only]; Region: COG0431 434271006624 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 434271006625 Predicted membrane protein [Function unknown]; Region: COG2259 434271006626 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 434271006627 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 434271006628 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 434271006629 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 434271006630 EamA-like transporter family; Region: EamA; pfam00892 434271006631 EamA-like transporter family; Region: EamA; pfam00892 434271006632 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 434271006633 binding surface 434271006634 Tetratricopeptide repeat; Region: TPR_16; pfam13432 434271006635 TPR motif; other site 434271006636 Protein of unknown function (DUF560); Region: DUF560; pfam04575 434271006637 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 434271006638 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 434271006639 active site 434271006640 motif I; other site 434271006641 motif II; other site 434271006642 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 434271006643 motif II; other site 434271006644 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 434271006645 DNA utilization protein GntX; Provisional; Region: PRK11595 434271006646 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 434271006647 active site 434271006648 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 434271006649 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 434271006650 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 434271006651 S-adenosylmethionine binding site [chemical binding]; other site 434271006652 DNA polymerase III subunit psi; Validated; Region: PRK06856 434271006653 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 434271006654 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 434271006655 Coenzyme A binding pocket [chemical binding]; other site 434271006656 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 434271006657 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 434271006658 ATP binding site [chemical binding]; other site 434271006659 Mg++ binding site [ion binding]; other site 434271006660 motif III; other site 434271006661 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 434271006662 nucleotide binding region [chemical binding]; other site 434271006663 ATP-binding site [chemical binding]; other site 434271006664 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 434271006665 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 434271006666 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 434271006667 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 434271006668 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 434271006669 peptide binding site [polypeptide binding]; other site 434271006670 Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like; Region: ALDH_StaphAldA1; cd07117 434271006671 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 434271006672 NAD(P) binding site [chemical binding]; other site 434271006673 catalytic residues [active] 434271006674 Predicted membrane protein [Function unknown]; Region: COG1584 434271006675 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 434271006676 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 434271006677 Walker A/P-loop; other site 434271006678 ATP binding site [chemical binding]; other site 434271006679 Q-loop/lid; other site 434271006680 ABC transporter signature motif; other site 434271006681 Walker B; other site 434271006682 D-loop; other site 434271006683 H-loop/switch region; other site 434271006684 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 434271006685 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 434271006686 siderophore binding site; other site 434271006687 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 434271006688 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 434271006689 ABC-ATPase subunit interface; other site 434271006690 dimer interface [polypeptide binding]; other site 434271006691 putative PBP binding regions; other site 434271006692 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 434271006693 ABC-ATPase subunit interface; other site 434271006694 dimer interface [polypeptide binding]; other site 434271006695 putative PBP binding regions; other site 434271006696 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 434271006697 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 434271006698 N-terminal plug; other site 434271006699 ligand-binding site [chemical binding]; other site 434271006700 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 434271006701 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 434271006702 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 434271006703 ATP binding site [chemical binding]; other site 434271006704 active site 434271006705 substrate binding site [chemical binding]; other site 434271006706 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 434271006707 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 434271006708 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 434271006709 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 434271006710 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 434271006711 NAD binding site [chemical binding]; other site 434271006712 dimerization interface [polypeptide binding]; other site 434271006713 product binding site; other site 434271006714 substrate binding site [chemical binding]; other site 434271006715 zinc binding site [ion binding]; other site 434271006716 catalytic residues [active] 434271006717 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 434271006718 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 434271006719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 434271006720 homodimer interface [polypeptide binding]; other site 434271006721 catalytic residue [active] 434271006722 Transposase IS200 like; Region: Y1_Tnp; pfam01797 434271006723 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 434271006724 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 434271006725 active site 434271006726 motif I; other site 434271006727 motif II; other site 434271006728 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 434271006729 putative active site pocket [active] 434271006730 4-fold oligomerization interface [polypeptide binding]; other site 434271006731 metal binding residues [ion binding]; metal-binding site 434271006732 3-fold/trimer interface [polypeptide binding]; other site 434271006733 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 434271006734 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 434271006735 putative active site [active] 434271006736 oxyanion strand; other site 434271006737 catalytic triad [active] 434271006738 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 434271006739 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 434271006740 catalytic residues [active] 434271006741 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 434271006742 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 434271006743 substrate binding site [chemical binding]; other site 434271006744 glutamase interaction surface [polypeptide binding]; other site 434271006745 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 434271006746 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 434271006747 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 434271006748 metal binding site [ion binding]; metal-binding site 434271006749 hypothetical protein; Provisional; Region: PRK11212 434271006750 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 434271006751 active site 434271006752 Transposase, Mutator family; Region: Transposase_mut; pfam00872 434271006753 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 434271006754 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 434271006755 DNA binding site [nucleotide binding] 434271006756 domain linker motif; other site 434271006757 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 434271006758 dimerization interface [polypeptide binding]; other site 434271006759 ligand binding site [chemical binding]; other site 434271006760 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 434271006761 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 434271006762 substrate binding [chemical binding]; other site 434271006763 active site 434271006764 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 434271006765 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 434271006766 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 434271006767 putative substrate binding site [chemical binding]; other site 434271006768 putative ATP binding site [chemical binding]; other site 434271006769 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 434271006770 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 434271006771 Multicopper oxidase; Region: Cu-oxidase; pfam00394 434271006772 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 434271006773 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 434271006774 FtsX-like permease family; Region: FtsX; pfam02687 434271006775 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 434271006776 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 434271006777 Walker A/P-loop; other site 434271006778 ATP binding site [chemical binding]; other site 434271006779 Q-loop/lid; other site 434271006780 ABC transporter signature motif; other site 434271006781 Walker B; other site 434271006782 D-loop; other site 434271006783 H-loop/switch region; other site 434271006784 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 434271006785 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 434271006786 FtsX-like permease family; Region: FtsX; pfam02687 434271006787 glycerate dehydrogenase; Provisional; Region: PRK06932 434271006788 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 434271006789 putative ligand binding site [chemical binding]; other site 434271006790 putative NAD binding site [chemical binding]; other site 434271006791 catalytic site [active] 434271006792 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 434271006793 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 434271006794 Uncharacterized conserved protein [Function unknown]; Region: COG2912 434271006795 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 434271006796 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 434271006797 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 434271006798 peptide chain release factor 1; Validated; Region: prfA; PRK00591 434271006799 This domain is found in peptide chain release factors; Region: PCRF; smart00937 434271006800 RF-1 domain; Region: RF-1; pfam00472 434271006801 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; cl00125 434271006802 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 434271006803 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 434271006804 active site residue [active] 434271006805 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 434271006806 active site residue [active] 434271006807 Predicted transporter component [General function prediction only]; Region: COG2391 434271006808 Sulphur transport; Region: Sulf_transp; pfam04143