-- dump date 20140618_191109 -- class Genbank::misc_feature -- table misc_feature_note -- id note 416269000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 416269000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 416269000003 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 416269000004 Walker B motif; other site 416269000005 arginine finger; other site 416269000006 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 416269000007 DnaA box-binding interface [nucleotide binding]; other site 416269000008 DNA polymerase III subunit beta; Validated; Region: PRK05643 416269000009 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 416269000010 putative DNA binding surface [nucleotide binding]; other site 416269000011 dimer interface [polypeptide binding]; other site 416269000012 beta-clamp/clamp loader binding surface; other site 416269000013 beta-clamp/translesion DNA polymerase binding surface; other site 416269000014 recF protein; Region: recf; TIGR00611 416269000015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269000016 Walker A/P-loop; other site 416269000017 ATP binding site [chemical binding]; other site 416269000018 Q-loop/lid; other site 416269000019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269000020 ABC transporter signature motif; other site 416269000021 Walker B; other site 416269000022 D-loop; other site 416269000023 H-loop/switch region; other site 416269000024 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 416269000025 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 416269000026 E-class dimer interface [polypeptide binding]; other site 416269000027 P-class dimer interface [polypeptide binding]; other site 416269000028 active site 416269000029 Cu2+ binding site [ion binding]; other site 416269000030 Zn2+ binding site [ion binding]; other site 416269000031 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 416269000032 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 416269000033 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416269000034 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 416269000035 eyelet of channel; other site 416269000036 trimer interface [polypeptide binding]; other site 416269000037 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 416269000038 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 416269000039 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 416269000040 putative inner membrane peptidase; Provisional; Region: PRK11778 416269000041 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 416269000042 tandem repeat interface [polypeptide binding]; other site 416269000043 oligomer interface [polypeptide binding]; other site 416269000044 active site residues [active] 416269000045 cell division protein MraZ; Reviewed; Region: PRK00326 416269000046 MraZ protein; Region: MraZ; pfam02381 416269000047 MraZ protein; Region: MraZ; pfam02381 416269000048 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 416269000049 MraW methylase family; Region: Methyltransf_5; pfam01795 416269000050 Cell division protein FtsL; Region: FtsL; pfam04999 416269000051 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 416269000052 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 416269000053 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 416269000054 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 416269000055 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 416269000056 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416269000057 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416269000058 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416269000059 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 416269000060 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 416269000061 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416269000062 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416269000063 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416269000064 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 416269000065 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 416269000066 Mg++ binding site [ion binding]; other site 416269000067 putative catalytic motif [active] 416269000068 putative substrate binding site [chemical binding]; other site 416269000069 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 416269000070 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416269000071 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416269000072 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 416269000073 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 416269000074 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 416269000075 active site 416269000076 homodimer interface [polypeptide binding]; other site 416269000077 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 416269000078 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416269000079 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416269000080 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416269000081 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 416269000082 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 416269000083 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 416269000084 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 416269000085 Cell division protein FtsQ; Region: FtsQ; pfam03799 416269000086 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 416269000087 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416269000088 nucleotide binding site [chemical binding]; other site 416269000089 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416269000090 Cell division protein FtsA; Region: FtsA; pfam14450 416269000091 cell division protein FtsZ; Region: ftsZ; TIGR00065 416269000092 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 416269000093 nucleotide binding site [chemical binding]; other site 416269000094 SulA interaction site; other site 416269000095 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 416269000096 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 416269000097 recombination and repair protein; Provisional; Region: PRK10869 416269000098 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 416269000099 Walker A/P-loop; other site 416269000100 ATP binding site [chemical binding]; other site 416269000101 Q-loop/lid; other site 416269000102 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 416269000103 ABC transporter signature motif; other site 416269000104 Walker B; other site 416269000105 D-loop; other site 416269000106 H-loop/switch region; other site 416269000107 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 416269000108 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416269000109 Walker A/P-loop; other site 416269000110 ATP binding site [chemical binding]; other site 416269000111 Q-loop/lid; other site 416269000112 ABC transporter signature motif; other site 416269000113 Walker B; other site 416269000114 D-loop; other site 416269000115 H-loop/switch region; other site 416269000116 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416269000117 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416269000118 Walker A/P-loop; other site 416269000119 ATP binding site [chemical binding]; other site 416269000120 Q-loop/lid; other site 416269000121 ABC transporter signature motif; other site 416269000122 Walker B; other site 416269000123 D-loop; other site 416269000124 H-loop/switch region; other site 416269000125 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 416269000126 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416269000127 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 416269000128 dimer interface [polypeptide binding]; other site 416269000129 conserved gate region; other site 416269000130 putative PBP binding loops; other site 416269000131 ABC-ATPase subunit interface; other site 416269000132 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 416269000133 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 416269000134 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 416269000135 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 416269000136 G1 box; other site 416269000137 putative GEF interaction site [polypeptide binding]; other site 416269000138 GTP/Mg2+ binding site [chemical binding]; other site 416269000139 Switch I region; other site 416269000140 G2 box; other site 416269000141 G3 box; other site 416269000142 Switch II region; other site 416269000143 G4 box; other site 416269000144 G5 box; other site 416269000145 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 416269000146 Protein of unknown function (DUF805); Region: DUF805; pfam05656 416269000147 Protein of unknown function (DUF805); Region: DUF805; pfam05656 416269000148 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 416269000149 putative active site [active] 416269000150 catalytic residue [active] 416269000151 GTP-binding protein YchF; Reviewed; Region: PRK09601 416269000152 YchF GTPase; Region: YchF; cd01900 416269000153 G1 box; other site 416269000154 GTP/Mg2+ binding site [chemical binding]; other site 416269000155 Switch I region; other site 416269000156 G2 box; other site 416269000157 Switch II region; other site 416269000158 G3 box; other site 416269000159 G4 box; other site 416269000160 G5 box; other site 416269000161 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 416269000162 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 416269000163 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 416269000164 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 416269000165 putative metal binding site [ion binding]; other site 416269000166 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 416269000167 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 416269000168 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 416269000169 active site 416269000170 HIGH motif; other site 416269000171 KMSK motif region; other site 416269000172 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 416269000173 tRNA binding surface [nucleotide binding]; other site 416269000174 anticodon binding site; other site 416269000175 GTPase CgtA; Reviewed; Region: obgE; PRK12298 416269000176 GTP1/OBG; Region: GTP1_OBG; pfam01018 416269000177 Obg GTPase; Region: Obg; cd01898 416269000178 G1 box; other site 416269000179 GTP/Mg2+ binding site [chemical binding]; other site 416269000180 Switch I region; other site 416269000181 G2 box; other site 416269000182 G3 box; other site 416269000183 Switch II region; other site 416269000184 G4 box; other site 416269000185 G5 box; other site 416269000186 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 416269000187 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 416269000188 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 416269000189 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 416269000190 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 416269000191 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 416269000192 domain interface [polypeptide binding]; other site 416269000193 putative active site [active] 416269000194 catalytic site [active] 416269000195 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 416269000196 domain interface [polypeptide binding]; other site 416269000197 putative active site [active] 416269000198 catalytic site [active] 416269000199 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 416269000200 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416269000201 active site 416269000202 HIGH motif; other site 416269000203 nucleotide binding site [chemical binding]; other site 416269000204 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 416269000205 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 416269000206 active site 416269000207 KMSKS motif; other site 416269000208 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 416269000209 tRNA binding surface [nucleotide binding]; other site 416269000210 anticodon binding site; other site 416269000211 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 416269000212 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 416269000213 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 416269000214 active site 416269000215 Riboflavin kinase; Region: Flavokinase; smart00904 416269000216 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 416269000217 non-specific DNA binding site [nucleotide binding]; other site 416269000218 salt bridge; other site 416269000219 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 416269000220 sequence-specific DNA binding site [nucleotide binding]; other site 416269000221 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416269000222 active site 416269000223 nucleotide binding site [chemical binding]; other site 416269000224 HIGH motif; other site 416269000225 KMSKS motif; other site 416269000226 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 416269000227 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416269000228 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 416269000229 active site 416269000230 metal binding site [ion binding]; metal-binding site 416269000231 two-component response regulator; Provisional; Region: PRK11173 416269000232 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 416269000233 active site 416269000234 phosphorylation site [posttranslational modification] 416269000235 intermolecular recognition site; other site 416269000236 dimerization interface [polypeptide binding]; other site 416269000237 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 416269000238 DNA binding site [nucleotide binding] 416269000239 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 416269000240 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269000241 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 416269000242 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 416269000243 active site 416269000244 motif I; other site 416269000245 motif II; other site 416269000246 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 416269000247 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416269000248 catalytic residue [active] 416269000249 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 416269000250 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 416269000251 G2 box; other site 416269000252 Switch I region; other site 416269000253 G3 box; other site 416269000254 Switch II region; other site 416269000255 GTP/Mg2+ binding site [chemical binding]; other site 416269000256 G4 box; other site 416269000257 G5 box; other site 416269000258 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 416269000259 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 416269000260 glutaredoxin 1; Provisional; Region: grxA; PRK11200 416269000261 ribonuclease PH; Reviewed; Region: rph; PRK00173 416269000262 Ribonuclease PH; Region: RNase_PH_bact; cd11362 416269000263 hexamer interface [polypeptide binding]; other site 416269000264 active site 416269000265 hypothetical protein; Provisional; Region: PRK11820 416269000266 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 416269000267 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 416269000268 putative global regulator; Reviewed; Region: PRK09559 416269000269 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 416269000270 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 416269000271 transcriptional regulator NarP; Provisional; Region: PRK10403 416269000272 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 416269000273 active site 416269000274 phosphorylation site [posttranslational modification] 416269000275 intermolecular recognition site; other site 416269000276 dimerization interface [polypeptide binding]; other site 416269000277 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 416269000278 DNA binding residues [nucleotide binding] 416269000279 dimerization interface [polypeptide binding]; other site 416269000280 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 416269000281 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 416269000282 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 416269000283 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 416269000284 putative RNA binding site [nucleotide binding]; other site 416269000285 Methyltransferase domain; Region: Methyltransf_26; pfam13659 416269000286 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 416269000287 transaldolase-like protein; Provisional; Region: PTZ00411 416269000288 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 416269000289 active site 416269000290 dimer interface [polypeptide binding]; other site 416269000291 catalytic residue [active] 416269000292 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 416269000293 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 416269000294 peptide binding site [polypeptide binding]; other site 416269000295 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 416269000296 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 416269000297 peptide binding site [polypeptide binding]; other site 416269000298 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416269000299 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 416269000300 dimer interface [polypeptide binding]; other site 416269000301 conserved gate region; other site 416269000302 putative PBP binding loops; other site 416269000303 ABC-ATPase subunit interface; other site 416269000304 dipeptide transporter; Provisional; Region: PRK10913 416269000305 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 416269000306 dimer interface [polypeptide binding]; other site 416269000307 conserved gate region; other site 416269000308 putative PBP binding loops; other site 416269000309 ABC-ATPase subunit interface; other site 416269000310 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 416269000311 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416269000312 Walker A/P-loop; other site 416269000313 ATP binding site [chemical binding]; other site 416269000314 Q-loop/lid; other site 416269000315 ABC transporter signature motif; other site 416269000316 Walker B; other site 416269000317 D-loop; other site 416269000318 H-loop/switch region; other site 416269000319 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 416269000320 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 416269000321 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416269000322 Walker A/P-loop; other site 416269000323 ATP binding site [chemical binding]; other site 416269000324 Q-loop/lid; other site 416269000325 ABC transporter signature motif; other site 416269000326 Walker B; other site 416269000327 D-loop; other site 416269000328 H-loop/switch region; other site 416269000329 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 416269000330 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 416269000331 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 416269000332 homotrimer interaction site [polypeptide binding]; other site 416269000333 putative active site [active] 416269000334 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 416269000335 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 416269000336 homodimer interface [polypeptide binding]; other site 416269000337 substrate-cofactor binding pocket; other site 416269000338 catalytic residue [active] 416269000339 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 416269000340 putative GSH binding site [chemical binding]; other site 416269000341 catalytic residues [active] 416269000342 recombination protein RecR; Reviewed; Region: recR; PRK00076 416269000343 RecR protein; Region: RecR; pfam02132 416269000344 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 416269000345 putative active site [active] 416269000346 putative metal-binding site [ion binding]; other site 416269000347 tetramer interface [polypeptide binding]; other site 416269000348 hypothetical protein; Validated; Region: PRK00153 416269000349 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 416269000350 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 416269000351 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 416269000352 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 416269000353 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 416269000354 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 416269000355 active site residue [active] 416269000356 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 416269000357 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 416269000358 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 416269000359 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 416269000360 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 416269000361 Dak1 domain; Region: Dak1; pfam02733 416269000362 thioredoxin reductase; Provisional; Region: PRK10262 416269000363 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416269000364 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416269000365 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 416269000366 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 416269000367 Ligand binding site; other site 416269000368 oligomer interface; other site 416269000369 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 416269000370 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 416269000371 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 416269000372 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 416269000373 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 416269000374 putative NADH binding site [chemical binding]; other site 416269000375 putative active site [active] 416269000376 nudix motif; other site 416269000377 putative metal binding site [ion binding]; other site 416269000378 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 416269000379 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 416269000380 active site 416269000381 EamA-like transporter family; Region: EamA; cl17759 416269000382 EamA-like transporter family; Region: EamA; pfam00892 416269000383 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 416269000384 proline dipeptidase; Provisional; Region: PRK13607 416269000385 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 416269000386 active site 416269000387 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 416269000388 CPxP motif; other site 416269000389 RNase E inhibitor protein; Provisional; Region: PRK11191 416269000390 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 416269000391 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 416269000392 G1 box; other site 416269000393 GTP/Mg2+ binding site [chemical binding]; other site 416269000394 Switch I region; other site 416269000395 G2 box; other site 416269000396 G3 box; other site 416269000397 Switch II region; other site 416269000398 G4 box; other site 416269000399 G5 box; other site 416269000400 Protein of unknown function (DUF805); Region: DUF805; pfam05656 416269000401 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 416269000402 ZIP Zinc transporter; Region: Zip; pfam02535 416269000403 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 416269000404 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 416269000405 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 416269000406 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416269000407 TPP binding site [chemical binding]; other site 416269000408 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 416269000409 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 416269000410 TPP-binding site [chemical binding]; other site 416269000411 dimer interface [polypeptide binding]; other site 416269000412 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 416269000413 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 416269000414 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 416269000415 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 416269000416 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 416269000417 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 416269000418 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 416269000419 trimer interface [polypeptide binding]; other site 416269000420 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 416269000421 trimer interface [polypeptide binding]; other site 416269000422 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 416269000423 trimer interface [polypeptide binding]; other site 416269000424 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 416269000425 trimer interface [polypeptide binding]; other site 416269000426 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 416269000427 trimer interface [polypeptide binding]; other site 416269000428 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 416269000429 trimer interface [polypeptide binding]; other site 416269000430 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 416269000431 YadA-like C-terminal region; Region: YadA; pfam03895 416269000432 uracil-xanthine permease; Region: ncs2; TIGR00801 416269000433 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 416269000434 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 416269000435 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 416269000436 Glutamate binding site [chemical binding]; other site 416269000437 NAD binding site [chemical binding]; other site 416269000438 catalytic residues [active] 416269000439 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 416269000440 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 416269000441 Na binding site [ion binding]; other site 416269000442 Transcriptional regulator [Transcription]; Region: IclR; COG1414 416269000443 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 416269000444 putative DNA binding site [nucleotide binding]; other site 416269000445 putative Zn2+ binding site [ion binding]; other site 416269000446 Bacterial transcriptional regulator; Region: IclR; pfam01614 416269000447 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 416269000448 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 416269000449 Cell division protein ZapA; Region: ZapA; cl01146 416269000450 hypothetical protein; Reviewed; Region: PRK01736 416269000451 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 416269000452 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 416269000453 substrate binding site [chemical binding]; other site 416269000454 active site 416269000455 Protein of unknown function (DUF416); Region: DUF416; cl01166 416269000456 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 416269000457 IHF dimer interface [polypeptide binding]; other site 416269000458 IHF - DNA interface [nucleotide binding]; other site 416269000459 thymidylate synthase; Reviewed; Region: thyA; PRK01827 416269000460 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 416269000461 dimerization interface [polypeptide binding]; other site 416269000462 active site 416269000463 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 416269000464 biotin synthase; Region: bioB; TIGR00433 416269000465 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 416269000466 FeS/SAM binding site; other site 416269000467 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 416269000468 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 416269000469 DNA-binding site [nucleotide binding]; DNA binding site 416269000470 RNA-binding motif; other site 416269000471 ProP expression regulator; Provisional; Region: PRK04950 416269000472 ProQ/FINO family; Region: ProQ; smart00945 416269000473 carboxy-terminal protease; Provisional; Region: PRK11186 416269000474 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 416269000475 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 416269000476 protein binding site [polypeptide binding]; other site 416269000477 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 416269000478 Catalytic dyad [active] 416269000479 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 416269000480 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 416269000481 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 416269000482 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 416269000483 Peptidase M15; Region: Peptidase_M15_3; cl01194 416269000484 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 416269000485 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 416269000486 active site 416269000487 substrate binding site [chemical binding]; other site 416269000488 ATP binding site [chemical binding]; other site 416269000489 Phosphotransferase enzyme family; Region: APH; pfam01636 416269000490 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 416269000491 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 416269000492 putative dimer interface [polypeptide binding]; other site 416269000493 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 416269000494 nucleotide binding site/active site [active] 416269000495 HIT family signature motif; other site 416269000496 catalytic residue [active] 416269000497 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 416269000498 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 416269000499 ABC-ATPase subunit interface; other site 416269000500 dimer interface [polypeptide binding]; other site 416269000501 putative PBP binding regions; other site 416269000502 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 416269000503 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 416269000504 ABC-ATPase subunit interface; other site 416269000505 dimer interface [polypeptide binding]; other site 416269000506 putative PBP binding regions; other site 416269000507 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 416269000508 RNA/DNA hybrid binding site [nucleotide binding]; other site 416269000509 active site 416269000510 GTPase RsgA; Reviewed; Region: PRK12288 416269000511 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 416269000512 RNA binding site [nucleotide binding]; other site 416269000513 homodimer interface [polypeptide binding]; other site 416269000514 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 416269000515 GTPase/Zn-binding domain interface [polypeptide binding]; other site 416269000516 GTP/Mg2+ binding site [chemical binding]; other site 416269000517 G4 box; other site 416269000518 G5 box; other site 416269000519 G1 box; other site 416269000520 Switch I region; other site 416269000521 G2 box; other site 416269000522 G3 box; other site 416269000523 Switch II region; other site 416269000524 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 416269000525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416269000526 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 416269000527 dimerization interface [polypeptide binding]; other site 416269000528 substrate binding pocket [chemical binding]; other site 416269000529 dUMP phosphatase; Provisional; Region: PRK09449 416269000530 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 416269000531 motif II; other site 416269000532 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 416269000533 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416269000534 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 416269000535 substrate binding site [chemical binding]; other site 416269000536 dimerization interface [polypeptide binding]; other site 416269000537 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 416269000538 active site 416269000539 homotetramer interface [polypeptide binding]; other site 416269000540 homodimer interface [polypeptide binding]; other site 416269000541 CTP synthetase; Validated; Region: pyrG; PRK05380 416269000542 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 416269000543 Catalytic site [active] 416269000544 active site 416269000545 UTP binding site [chemical binding]; other site 416269000546 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 416269000547 active site 416269000548 putative oxyanion hole; other site 416269000549 catalytic triad [active] 416269000550 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 416269000551 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 416269000552 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 416269000553 substrate binding site [chemical binding]; other site 416269000554 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 416269000555 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 416269000556 substrate binding site [chemical binding]; other site 416269000557 ligand binding site [chemical binding]; other site 416269000558 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 416269000559 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 416269000560 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 416269000561 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 416269000562 fructuronate transporter; Provisional; Region: PRK10034; cl15264 416269000563 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 416269000564 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 416269000565 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 416269000566 acylphosphatase; Provisional; Region: PRK14448 416269000567 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 416269000568 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 416269000569 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 416269000570 putative active site [active] 416269000571 putative metal-binding site [ion binding]; other site 416269000572 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 416269000573 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 416269000574 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 416269000575 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 416269000576 FMN binding site [chemical binding]; other site 416269000577 active site 416269000578 catalytic residues [active] 416269000579 substrate binding site [chemical binding]; other site 416269000580 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 416269000581 dimer interface [polypeptide binding]; other site 416269000582 putative radical transfer pathway; other site 416269000583 diiron center [ion binding]; other site 416269000584 tyrosyl radical; other site 416269000585 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 416269000586 Class I ribonucleotide reductase; Region: RNR_I; cd01679 416269000587 active site 416269000588 dimer interface [polypeptide binding]; other site 416269000589 catalytic residues [active] 416269000590 effector binding site; other site 416269000591 R2 peptide binding site; other site 416269000592 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 416269000593 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 416269000594 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 416269000595 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 416269000596 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 416269000597 E3 interaction surface; other site 416269000598 lipoyl attachment site [posttranslational modification]; other site 416269000599 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 416269000600 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 416269000601 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 416269000602 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 416269000603 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 416269000604 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 416269000605 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 416269000606 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 416269000607 FAD binding pocket [chemical binding]; other site 416269000608 FAD binding motif [chemical binding]; other site 416269000609 phosphate binding motif [ion binding]; other site 416269000610 beta-alpha-beta structure motif; other site 416269000611 NAD binding pocket [chemical binding]; other site 416269000612 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 416269000613 ApbE family; Region: ApbE; pfam02424 416269000614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 416269000615 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 416269000616 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 416269000617 Ligand Binding Site [chemical binding]; other site 416269000618 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 416269000619 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 416269000620 putative substrate translocation pore; other site 416269000621 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 416269000622 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 416269000623 recombination associated protein; Reviewed; Region: rdgC; PRK00321 416269000624 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 416269000625 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 416269000626 motif II; other site 416269000627 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 416269000628 Class III ribonucleotide reductase; Region: RNR_III; cd01675 416269000629 effector binding site; other site 416269000630 active site 416269000631 Zn binding site [ion binding]; other site 416269000632 glycine loop; other site 416269000633 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: RNR_activ_nrdG3; TIGR02826 416269000634 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 416269000635 electron transport complex protein RsxA; Provisional; Region: PRK05151 416269000636 ferredoxin; Provisional; Region: PRK08764 416269000637 Putative Fe-S cluster; Region: FeS; pfam04060 416269000638 4Fe-4S binding domain; Region: Fer4; pfam00037 416269000639 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 416269000640 SLBB domain; Region: SLBB; pfam10531 416269000641 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 416269000642 Predicted membrane protein [Function unknown]; Region: COG2860 416269000643 UPF0126 domain; Region: UPF0126; pfam03458 416269000644 UPF0126 domain; Region: UPF0126; pfam03458 416269000645 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 416269000646 electron transport complex protein RnfG; Validated; Region: PRK01908 416269000647 electron transport complex RsxE subunit; Provisional; Region: PRK12405 416269000648 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 416269000649 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 416269000650 putative acyl-acceptor binding pocket; other site 416269000651 hypothetical protein; Validated; Region: PRK06886 416269000652 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 416269000653 active site 416269000654 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 416269000655 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 416269000656 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 416269000657 poly(A) polymerase; Region: pcnB; TIGR01942 416269000658 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 416269000659 active site 416269000660 NTP binding site [chemical binding]; other site 416269000661 metal binding triad [ion binding]; metal-binding site 416269000662 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 416269000663 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 416269000664 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 416269000665 catalytic center binding site [active] 416269000666 ATP binding site [chemical binding]; other site 416269000667 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 416269000668 hypothetical protein; Provisional; Region: PRK10695 416269000669 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416269000670 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 416269000671 dimer interface [polypeptide binding]; other site 416269000672 active site 416269000673 metal binding site [ion binding]; metal-binding site 416269000674 glutathione binding site [chemical binding]; other site 416269000675 ribonuclease T; Provisional; Region: PRK05168 416269000676 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 416269000677 active site 416269000678 catalytic site [active] 416269000679 substrate binding site [chemical binding]; other site 416269000680 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 416269000681 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 416269000682 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 416269000683 prephenate dehydrogenase; Validated; Region: PRK08507 416269000684 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 416269000685 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 416269000686 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 416269000687 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 416269000688 putative active site [active] 416269000689 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 416269000690 pyruvate kinase; Provisional; Region: PRK05826 416269000691 domain interfaces; other site 416269000692 active site 416269000693 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 416269000694 catalytic core [active] 416269000695 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 416269000696 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 416269000697 FMN binding site [chemical binding]; other site 416269000698 active site 416269000699 catalytic residues [active] 416269000700 substrate binding site [chemical binding]; other site 416269000701 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 416269000702 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 416269000703 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 416269000704 Na2 binding site [ion binding]; other site 416269000705 putative substrate binding site 1 [chemical binding]; other site 416269000706 Na binding site 1 [ion binding]; other site 416269000707 putative substrate binding site 2 [chemical binding]; other site 416269000708 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 416269000709 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 416269000710 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 416269000711 active site 416269000712 dimer interface [polypeptide binding]; other site 416269000713 metal binding site [ion binding]; metal-binding site 416269000714 shikimate kinase; Reviewed; Region: aroK; PRK00131 416269000715 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 416269000716 ADP binding site [chemical binding]; other site 416269000717 magnesium binding site [ion binding]; other site 416269000718 putative shikimate binding site; other site 416269000719 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 416269000720 Transglycosylase; Region: Transgly; pfam00912 416269000721 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 416269000722 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 416269000723 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 416269000724 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 416269000725 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 416269000726 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 416269000727 putative RNA binding site [nucleotide binding]; other site 416269000728 thiamine monophosphate kinase; Provisional; Region: PRK05731 416269000729 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 416269000730 ATP binding site [chemical binding]; other site 416269000731 dimerization interface [polypeptide binding]; other site 416269000732 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 416269000733 tetramer interfaces [polypeptide binding]; other site 416269000734 binuclear metal-binding site [ion binding]; other site 416269000735 LysE type translocator; Region: LysE; cl00565 416269000736 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 416269000737 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 416269000738 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 416269000739 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 416269000740 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 416269000741 active site 416269000742 dimerization interface [polypeptide binding]; other site 416269000743 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 416269000744 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 416269000745 TPP-binding site; other site 416269000746 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 416269000747 PYR/PP interface [polypeptide binding]; other site 416269000748 dimer interface [polypeptide binding]; other site 416269000749 TPP binding site [chemical binding]; other site 416269000750 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 416269000751 Integrase core domain; Region: rve; pfam00665 416269000752 Integrase core domain; Region: rve_2; pfam13333 416269000753 HTH-like domain; Region: HTH_21; pfam13276 416269000754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416269000755 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269000756 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269000757 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 416269000758 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 416269000759 dimer interface [polypeptide binding]; other site 416269000760 active site 416269000761 glycine-pyridoxal phosphate binding site [chemical binding]; other site 416269000762 folate binding site [chemical binding]; other site 416269000763 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 416269000764 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 416269000765 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 416269000766 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 416269000767 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 416269000768 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 416269000769 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 416269000770 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 416269000771 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 416269000772 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 416269000773 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 416269000774 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 416269000775 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 416269000776 active site 416269000777 dimer interface [polypeptide binding]; other site 416269000778 motif 1; other site 416269000779 motif 2; other site 416269000780 motif 3; other site 416269000781 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 416269000782 anticodon binding site; other site 416269000783 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 416269000784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 416269000785 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 416269000786 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 416269000787 translation initiation factor IF-3; Region: infC; TIGR00168 416269000788 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 416269000789 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 416269000790 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 416269000791 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 416269000792 23S rRNA binding site [nucleotide binding]; other site 416269000793 L21 binding site [polypeptide binding]; other site 416269000794 L13 binding site [polypeptide binding]; other site 416269000795 hypothetical protein; Provisional; Region: PRK06762 416269000796 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 416269000797 Domain of unknown function DUF21; Region: DUF21; pfam01595 416269000798 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 416269000799 Transporter associated domain; Region: CorC_HlyC; smart01091 416269000800 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 416269000801 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 416269000802 active site 416269000803 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 416269000804 catalytic core [active] 416269000805 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 416269000806 hypothetical protein; Validated; Region: PRK00228 416269000807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 416269000808 RNA methyltransferase, RsmE family; Region: TIGR00046 416269000809 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 416269000810 BolA-like protein; Region: BolA; cl00386 416269000811 NlpE N-terminal domain; Region: NlpE; pfam04170 416269000812 Protein of unknown function (DUF721); Region: DUF721; cl02324 416269000813 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 416269000814 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 416269000815 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 416269000816 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 416269000817 nucleotide binding region [chemical binding]; other site 416269000818 ATP-binding site [chemical binding]; other site 416269000819 SEC-C motif; Region: SEC-C; pfam02810 416269000820 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 416269000821 TPR motif; other site 416269000822 TPR repeat; Region: TPR_11; pfam13414 416269000823 binding surface 416269000824 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 416269000825 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 416269000826 active site 416269000827 8-oxo-dGMP binding site [chemical binding]; other site 416269000828 nudix motif; other site 416269000829 metal binding site [ion binding]; metal-binding site 416269000830 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 416269000831 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 416269000832 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 416269000833 homohexameric interface [polypeptide binding]; other site 416269000834 feedback inhibition sensing region; other site 416269000835 nucleotide binding site [chemical binding]; other site 416269000836 N-acetyl-L-glutamate binding site [chemical binding]; other site 416269000837 acetylornithine aminotransferase; Provisional; Region: PRK02627 416269000838 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 416269000839 inhibitor-cofactor binding pocket; inhibition site 416269000840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269000841 catalytic residue [active] 416269000842 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 416269000843 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 416269000844 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 416269000845 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 416269000846 transcription termination factor Rho; Provisional; Region: rho; PRK09376 416269000847 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 416269000848 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 416269000849 RNA binding site [nucleotide binding]; other site 416269000850 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 416269000851 multimer interface [polypeptide binding]; other site 416269000852 Walker A motif; other site 416269000853 ATP binding site [chemical binding]; other site 416269000854 Walker B motif; other site 416269000855 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 416269000856 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 416269000857 dimer interface [polypeptide binding]; other site 416269000858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269000859 catalytic residue [active] 416269000860 homoserine kinase; Provisional; Region: PRK01212 416269000861 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 416269000862 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 416269000863 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 416269000864 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 416269000865 nucleotide binding site [chemical binding]; other site 416269000866 substrate binding site [chemical binding]; other site 416269000867 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 416269000868 dimer interface [polypeptide binding]; other site 416269000869 putative threonine allosteric regulatory site; other site 416269000870 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 416269000871 putative threonine allosteric regulatory site; other site 416269000872 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 416269000873 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 416269000874 superoxide dismutase; Provisional; Region: PRK10925 416269000875 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 416269000876 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 416269000877 alanine racemase; Reviewed; Region: alr; PRK00053 416269000878 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 416269000879 active site 416269000880 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416269000881 substrate binding site [chemical binding]; other site 416269000882 catalytic residues [active] 416269000883 dimer interface [polypeptide binding]; other site 416269000884 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 416269000885 AAA domain; Region: AAA_30; pfam13604 416269000886 Family description; Region: UvrD_C_2; pfam13538 416269000887 16S ribosomal RNA; contains internal duplication 416269000888 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 416269000889 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 416269000890 metal binding site [ion binding]; metal-binding site 416269000891 dimer interface [polypeptide binding]; other site 416269000892 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416269000893 active site 416269000894 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 416269000895 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 416269000896 catalytic site [active] 416269000897 G-X2-G-X-G-K; other site 416269000898 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 416269000899 hypothetical protein; Validated; Region: PRK01777 416269000900 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 416269000901 putative coenzyme Q binding site [chemical binding]; other site 416269000902 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 416269000903 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269000904 Walker A/P-loop; other site 416269000905 ATP binding site [chemical binding]; other site 416269000906 Q-loop/lid; other site 416269000907 ABC transporter signature motif; other site 416269000908 Walker B; other site 416269000909 D-loop; other site 416269000910 H-loop/switch region; other site 416269000911 TOBE domain; Region: TOBE; pfam03459 416269000912 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 416269000913 dimer interface [polypeptide binding]; other site 416269000914 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 416269000915 conserved gate region; other site 416269000916 putative PBP binding loops; other site 416269000917 ABC-ATPase subunit interface; other site 416269000918 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 416269000919 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 416269000920 inner membrane transport permease; Provisional; Region: PRK15066 416269000921 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 416269000922 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 416269000923 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416269000924 Walker A/P-loop; other site 416269000925 ATP binding site [chemical binding]; other site 416269000926 Q-loop/lid; other site 416269000927 ABC transporter signature motif; other site 416269000928 Walker B; other site 416269000929 D-loop; other site 416269000930 H-loop/switch region; other site 416269000931 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 416269000932 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 416269000933 Walker A motif; other site 416269000934 ATP binding site [chemical binding]; other site 416269000935 Walker B motif; other site 416269000936 DNA polymerase III subunit delta'; Validated; Region: PRK08485 416269000937 arginine finger; other site 416269000938 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 416269000939 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 416269000940 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416269000941 active site 416269000942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 416269000943 YheO-like PAS domain; Region: PAS_6; pfam08348 416269000944 HTH domain; Region: HTH_22; pfam13309 416269000945 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 416269000946 homotrimer interaction site [polypeptide binding]; other site 416269000947 putative active site [active] 416269000948 threonine synthase; Validated; Region: PRK06450 416269000949 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 416269000950 homodimer interface [polypeptide binding]; other site 416269000951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269000952 catalytic residue [active] 416269000953 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 416269000954 putative deacylase active site [active] 416269000955 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 416269000956 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 416269000957 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 416269000958 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 416269000959 metal binding site [ion binding]; metal-binding site 416269000960 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 416269000961 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 416269000962 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 416269000963 YccA-like proteins; Region: YccA_like; cd10433 416269000964 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 416269000965 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 416269000966 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 416269000967 N-terminal plug; other site 416269000968 ligand-binding site [chemical binding]; other site 416269000969 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 416269000970 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 416269000971 GIY-YIG motif/motif A; other site 416269000972 active site 416269000973 catalytic site [active] 416269000974 putative DNA binding site [nucleotide binding]; other site 416269000975 metal binding site [ion binding]; metal-binding site 416269000976 UvrB/uvrC motif; Region: UVR; pfam02151 416269000977 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 416269000978 Helix-hairpin-helix motif; Region: HHH; pfam00633 416269000979 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 416269000980 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 416269000981 active site 416269000982 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 416269000983 Part of AAA domain; Region: AAA_19; pfam13245 416269000984 Family description; Region: UvrD_C_2; pfam13538 416269000985 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 416269000986 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 416269000987 Walker A/P-loop; other site 416269000988 ATP binding site [chemical binding]; other site 416269000989 Q-loop/lid; other site 416269000990 ABC transporter signature motif; other site 416269000991 Walker B; other site 416269000992 D-loop; other site 416269000993 H-loop/switch region; other site 416269000994 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 416269000995 dimer interface [polypeptide binding]; other site 416269000996 conserved gate region; other site 416269000997 putative PBP binding loops; other site 416269000998 ABC-ATPase subunit interface; other site 416269000999 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 416269001000 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 416269001001 dimer interface [polypeptide binding]; other site 416269001002 conserved gate region; other site 416269001003 putative PBP binding loops; other site 416269001004 ABC-ATPase subunit interface; other site 416269001005 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 416269001006 RuvA N terminal domain; Region: RuvA_N; pfam01330 416269001007 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 416269001008 helix-hairpin-helix signature motif; other site 416269001009 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 416269001010 Holliday junction DNA helicase, RuvB subunit; Region: ruvB; TIGR00635 416269001011 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 416269001012 Walker A motif; other site 416269001013 ATP binding site [chemical binding]; other site 416269001014 Walker B motif; other site 416269001015 arginine finger; other site 416269001016 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 416269001017 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 416269001018 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 416269001019 S-adenosylmethionine binding site [chemical binding]; other site 416269001020 DNA gyrase subunit A; Validated; Region: PRK05560 416269001021 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 416269001022 CAP-like domain; other site 416269001023 active site 416269001024 primary dimer interface [polypeptide binding]; other site 416269001025 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416269001026 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416269001027 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416269001028 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416269001029 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416269001030 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416269001031 BRO family, N-terminal domain; Region: Bro-N; smart01040 416269001032 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 416269001033 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 416269001034 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 416269001035 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 416269001036 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 416269001037 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 416269001038 ATP binding site [chemical binding]; other site 416269001039 putative Mg++ binding site [ion binding]; other site 416269001040 ABC transporter ATPase component; Reviewed; Region: PRK11147 416269001041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269001042 Walker A/P-loop; other site 416269001043 ATP binding site [chemical binding]; other site 416269001044 ABC transporter signature motif; other site 416269001045 Walker B; other site 416269001046 D-loop; other site 416269001047 H-loop/switch region; other site 416269001048 ABC transporter; Region: ABC_tran_2; pfam12848 416269001049 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416269001050 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 416269001051 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 416269001052 putative ATP binding site [chemical binding]; other site 416269001053 putative substrate interface [chemical binding]; other site 416269001054 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 416269001055 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 416269001056 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 416269001057 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 416269001058 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 416269001059 active site 416269001060 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 416269001061 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 416269001062 colicin uptake protein TolR; Provisional; Region: PRK11024 416269001063 TolA C-terminal; Region: TolA; pfam06519 416269001064 translocation protein TolB; Provisional; Region: tolB; PRK01742 416269001065 TolB amino-terminal domain; Region: TolB_N; pfam04052 416269001066 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 416269001067 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 416269001068 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 416269001069 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416269001070 ligand binding site [chemical binding]; other site 416269001071 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 416269001072 EamA-like transporter family; Region: EamA; pfam00892 416269001073 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 416269001074 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 416269001075 putative metal binding site [ion binding]; other site 416269001076 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 416269001077 HSP70 interaction site [polypeptide binding]; other site 416269001078 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 416269001079 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 416269001080 FMN binding site [chemical binding]; other site 416269001081 active site 416269001082 catalytic residues [active] 416269001083 substrate binding site [chemical binding]; other site 416269001084 hypothetical protein; Provisional; Region: PRK05415 416269001085 Domain of unknown function (DUF697); Region: DUF697; cl12064 416269001086 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 416269001087 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269001088 Walker A/P-loop; other site 416269001089 ATP binding site [chemical binding]; other site 416269001090 Q-loop/lid; other site 416269001091 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416269001092 ABC transporter; Region: ABC_tran_2; pfam12848 416269001093 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416269001094 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 416269001095 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 416269001096 dimer interface [polypeptide binding]; other site 416269001097 putative functional site; other site 416269001098 putative MPT binding site; other site 416269001099 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 416269001100 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 416269001101 ATP binding site [chemical binding]; other site 416269001102 substrate interface [chemical binding]; other site 416269001103 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 416269001104 TRAM domain; Region: TRAM; pfam01938 416269001105 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 416269001106 S-adenosylmethionine binding site [chemical binding]; other site 416269001107 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 416269001108 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 416269001109 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 416269001110 ATP-dependent helicase HepA; Validated; Region: PRK04914 416269001111 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 416269001112 ATP binding site [chemical binding]; other site 416269001113 putative Mg++ binding site [ion binding]; other site 416269001114 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 416269001115 nucleotide binding region [chemical binding]; other site 416269001116 ATP-binding site [chemical binding]; other site 416269001117 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 416269001118 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 416269001119 active site 416269001120 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 416269001121 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 416269001122 amidase catalytic site [active] 416269001123 Zn binding residues [ion binding]; other site 416269001124 substrate binding site [chemical binding]; other site 416269001125 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 416269001126 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416269001127 active site 416269001128 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 416269001129 substrate binding site [chemical binding]; other site 416269001130 THF binding site; other site 416269001131 zinc-binding site [ion binding]; other site 416269001132 cystathionine beta-lyase; Provisional; Region: PRK08114 416269001133 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 416269001134 homodimer interface [polypeptide binding]; other site 416269001135 substrate-cofactor binding pocket; other site 416269001136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269001137 catalytic residue [active] 416269001138 disulfide bond formation protein B; Provisional; Region: PRK01749 416269001139 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 416269001140 fatty acid metabolism regulator; Provisional; Region: PRK04984 416269001141 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416269001142 DNA-binding site [nucleotide binding]; DNA binding site 416269001143 FadR C-terminal domain; Region: FadR_C; pfam07840 416269001144 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 416269001145 PhoH-like protein; Region: PhoH; pfam02562 416269001146 Predicted permeases [General function prediction only]; Region: COG0679 416269001147 peptide chain release factor 2; Provisional; Region: PRK08787 416269001148 This domain is found in peptide chain release factors; Region: PCRF; smart00937 416269001149 RF-1 domain; Region: RF-1; pfam00472 416269001150 selenophosphate synthetase; Provisional; Region: PRK00943 416269001151 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 416269001152 dimerization interface [polypeptide binding]; other site 416269001153 putative ATP binding site [chemical binding]; other site 416269001154 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 416269001155 nudix motif; other site 416269001156 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416269001157 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 416269001158 hypothetical protein; Provisional; Region: PRK11281 416269001159 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416269001160 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 416269001161 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 416269001162 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 416269001163 active site 416269001164 phosphorylation site [posttranslational modification] 416269001165 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 416269001166 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 416269001167 Walker A/P-loop; other site 416269001168 ATP binding site [chemical binding]; other site 416269001169 Q-loop/lid; other site 416269001170 ABC transporter signature motif; other site 416269001171 Walker B; other site 416269001172 D-loop; other site 416269001173 H-loop/switch region; other site 416269001174 OstA-like protein; Region: OstA; cl00844 416269001175 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 416269001176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 416269001177 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 416269001178 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 416269001179 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 416269001180 Repair protein; Region: Repair_PSII; pfam04536 416269001181 Repair protein; Region: Repair_PSII; cl01535 416269001182 LemA family; Region: LemA; cl00742 416269001183 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 416269001184 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 416269001185 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 416269001186 active site 416269001187 P-loop; other site 416269001188 phosphorylation site [posttranslational modification] 416269001189 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 416269001190 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 416269001191 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 416269001192 putative substrate binding site [chemical binding]; other site 416269001193 putative ATP binding site [chemical binding]; other site 416269001194 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 416269001195 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 416269001196 active site 416269001197 phosphorylation site [posttranslational modification] 416269001198 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; cl00163 416269001199 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 416269001200 dimerization domain swap beta strand [polypeptide binding]; other site 416269001201 regulatory protein interface [polypeptide binding]; other site 416269001202 active site 416269001203 regulatory phosphorylation site [posttranslational modification]; other site 416269001204 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 416269001205 dimerization domain swap beta strand [polypeptide binding]; other site 416269001206 regulatory protein interface [polypeptide binding]; other site 416269001207 active site 416269001208 regulatory phosphorylation site [posttranslational modification]; other site 416269001209 glycogen branching enzyme; Provisional; Region: PRK05402 416269001210 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 416269001211 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 416269001212 active site 416269001213 catalytic site [active] 416269001214 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 416269001215 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 416269001216 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 416269001217 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 416269001218 active site 416269001219 catalytic site [active] 416269001220 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 416269001221 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 416269001222 ligand binding site; other site 416269001223 oligomer interface; other site 416269001224 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 416269001225 dimer interface [polypeptide binding]; other site 416269001226 N-terminal domain interface [polypeptide binding]; other site 416269001227 sulfate 1 binding site; other site 416269001228 glycogen synthase; Provisional; Region: glgA; PRK00654 416269001229 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 416269001230 ADP-binding pocket [chemical binding]; other site 416269001231 homodimer interface [polypeptide binding]; other site 416269001232 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 416269001233 homodimer interface [polypeptide binding]; other site 416269001234 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 416269001235 active site pocket [active] 416269001236 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 416269001237 active site 416269001238 multimer interface [polypeptide binding]; other site 416269001239 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 416269001240 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 416269001241 active site 416269001242 HIGH motif; other site 416269001243 KMSKS motif; other site 416269001244 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 416269001245 tRNA binding surface [nucleotide binding]; other site 416269001246 anticodon binding site; other site 416269001247 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 416269001248 dimer interface [polypeptide binding]; other site 416269001249 putative tRNA-binding site [nucleotide binding]; other site 416269001250 O-succinylbenzoate synthase; Provisional; Region: PRK05105 416269001251 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 416269001252 active site 416269001253 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 416269001254 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 416269001255 RNA binding surface [nucleotide binding]; other site 416269001256 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 416269001257 active site 416269001258 uracil binding [chemical binding]; other site 416269001259 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 416269001260 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 416269001261 putative substrate translocation pore; other site 416269001262 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 416269001263 endonuclease IV; Provisional; Region: PRK01060 416269001264 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 416269001265 AP (apurinic/apyrimidinic) site pocket; other site 416269001266 DNA interaction; other site 416269001267 Metal-binding active site; metal-binding site 416269001268 NlpC/P60 family; Region: NLPC_P60; pfam00877 416269001269 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 416269001270 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 416269001271 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 416269001272 ligand binding site [chemical binding]; other site 416269001273 active site 416269001274 UGI interface [polypeptide binding]; other site 416269001275 catalytic site [active] 416269001276 Protein of unknown function (DUF535); Region: DUF535; pfam04393 416269001277 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 416269001278 catalytic triad [active] 416269001279 putative active site [active] 416269001280 Autotransporter beta-domain; Region: Autotransporter; smart00869 416269001281 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 416269001282 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 416269001283 ATP binding site [chemical binding]; other site 416269001284 putative Mg++ binding site [ion binding]; other site 416269001285 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 416269001286 nucleotide binding region [chemical binding]; other site 416269001287 ATP-binding site [chemical binding]; other site 416269001288 Helicase associated domain (HA2); Region: HA2; pfam04408 416269001289 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 416269001290 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 416269001291 Predicted membrane protein [Function unknown]; Region: COG2707 416269001292 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 416269001293 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 416269001294 dimer interface [polypeptide binding]; other site 416269001295 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 416269001296 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 416269001297 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 416269001298 multidrug efflux protein; Reviewed; Region: PRK01766 416269001299 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 416269001300 cation binding site [ion binding]; other site 416269001301 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 416269001302 Part of AAA domain; Region: AAA_19; pfam13245 416269001303 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 416269001304 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 416269001305 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 416269001306 putative active site [active] 416269001307 catalytic triad [active] 416269001308 putative dimer interface [polypeptide binding]; other site 416269001309 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 416269001310 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 416269001311 Transporter associated domain; Region: CorC_HlyC; smart01091 416269001312 hypothetical protein; Provisional; Region: PRK01904 416269001313 hypothetical protein; Provisional; Region: PRK03641 416269001314 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 416269001315 amphipathic channel; other site 416269001316 Asn-Pro-Ala signature motifs; other site 416269001317 glycerol kinase; Provisional; Region: glpK; PRK00047 416269001318 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 416269001319 N- and C-terminal domain interface [polypeptide binding]; other site 416269001320 active site 416269001321 MgATP binding site [chemical binding]; other site 416269001322 catalytic site [active] 416269001323 metal binding site [ion binding]; metal-binding site 416269001324 glycerol binding site [chemical binding]; other site 416269001325 homotetramer interface [polypeptide binding]; other site 416269001326 homodimer interface [polypeptide binding]; other site 416269001327 FBP binding site [chemical binding]; other site 416269001328 protein IIAGlc interface [polypeptide binding]; other site 416269001329 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 416269001330 Found in ATP-dependent protease La (LON); Region: LON; smart00464 416269001331 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 416269001332 Walker A motif; other site 416269001333 ATP binding site [chemical binding]; other site 416269001334 Walker B motif; other site 416269001335 arginine finger; other site 416269001336 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 416269001337 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 416269001338 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 416269001339 putative substrate translocation pore; other site 416269001340 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 416269001341 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 416269001342 active site 416269001343 catalytic site [active] 416269001344 metal binding site [ion binding]; metal-binding site 416269001345 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 416269001346 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 416269001347 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 416269001348 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 416269001349 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 416269001350 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 416269001351 Cysteine-rich domain; Region: CCG; pfam02754 416269001352 Cysteine-rich domain; Region: CCG; pfam02754 416269001353 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 416269001354 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 416269001355 catalytic motif [active] 416269001356 Zn binding site [ion binding]; other site 416269001357 RibD C-terminal domain; Region: RibD_C; cl17279 416269001358 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 416269001359 Lumazine binding domain; Region: Lum_binding; pfam00677 416269001360 Lumazine binding domain; Region: Lum_binding; pfam00677 416269001361 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 416269001362 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 416269001363 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 416269001364 dimerization interface [polypeptide binding]; other site 416269001365 active site 416269001366 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 416269001367 homopentamer interface [polypeptide binding]; other site 416269001368 active site 416269001369 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 416269001370 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 416269001371 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 416269001372 KpsF/GutQ family protein; Region: kpsF; TIGR00393 416269001373 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 416269001374 putative active site [active] 416269001375 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 416269001376 aminopeptidase B; Provisional; Region: PRK05015 416269001377 Peptidase; Region: DUF3663; pfam12404 416269001378 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 416269001379 interface (dimer of trimers) [polypeptide binding]; other site 416269001380 Substrate-binding/catalytic site; other site 416269001381 Zn-binding sites [ion binding]; other site 416269001382 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 416269001383 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 416269001384 Sodium Bile acid symporter family; Region: SBF; pfam01758 416269001385 macrolide transporter subunit MacA; Provisional; Region: PRK11578 416269001386 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416269001387 HlyD family secretion protein; Region: HlyD_3; pfam13437 416269001388 putative hydrolase; Provisional; Region: PRK10976 416269001389 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 416269001390 active site 416269001391 motif I; other site 416269001392 motif II; other site 416269001393 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416269001394 2-isopropylmalate synthase; Validated; Region: PRK00915 416269001395 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 416269001396 active site 416269001397 catalytic residues [active] 416269001398 metal binding site [ion binding]; metal-binding site 416269001399 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 416269001400 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 416269001401 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416269001402 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 416269001403 DNA binding residues [nucleotide binding] 416269001404 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 416269001405 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 416269001406 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 416269001407 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 416269001408 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 416269001409 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416269001410 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 416269001411 acyl-activating enzyme (AAE) consensus motif; other site 416269001412 putative AMP binding site [chemical binding]; other site 416269001413 putative active site [active] 416269001414 putative CoA binding site [chemical binding]; other site 416269001415 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416269001416 active site 416269001417 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 416269001418 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 416269001419 S-adenosylmethionine binding site [chemical binding]; other site 416269001420 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 416269001421 SurA N-terminal domain; Region: SurA_N; pfam09312 416269001422 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 416269001423 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 416269001424 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416269001425 active site 416269001426 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 416269001427 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 416269001428 putative ribose interaction site [chemical binding]; other site 416269001429 putative ADP binding site [chemical binding]; other site 416269001430 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 416269001431 active site 416269001432 nucleotide binding site [chemical binding]; other site 416269001433 HIGH motif; other site 416269001434 KMSKS motif; other site 416269001435 GTP-binding protein Der; Reviewed; Region: PRK00093 416269001436 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 416269001437 G1 box; other site 416269001438 GTP/Mg2+ binding site [chemical binding]; other site 416269001439 Switch I region; other site 416269001440 G2 box; other site 416269001441 Switch II region; other site 416269001442 G3 box; other site 416269001443 G4 box; other site 416269001444 G5 box; other site 416269001445 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 416269001446 G1 box; other site 416269001447 GTP/Mg2+ binding site [chemical binding]; other site 416269001448 Switch I region; other site 416269001449 G2 box; other site 416269001450 G3 box; other site 416269001451 Switch II region; other site 416269001452 G4 box; other site 416269001453 G5 box; other site 416269001454 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 416269001455 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 416269001456 tRNA; other site 416269001457 putative tRNA binding site [nucleotide binding]; other site 416269001458 putative NADP binding site [chemical binding]; other site 416269001459 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 416269001460 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 416269001461 HD domain; Region: HD_4; pfam13328 416269001462 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 416269001463 synthetase active site [active] 416269001464 NTP binding site [chemical binding]; other site 416269001465 metal binding site [ion binding]; metal-binding site 416269001466 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 416269001467 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 416269001468 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 416269001469 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 416269001470 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 416269001471 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 416269001472 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 416269001473 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 416269001474 active site 416269001475 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 416269001476 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 416269001477 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 416269001478 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 416269001479 trimer interface [polypeptide binding]; other site 416269001480 active site 416269001481 UDP-GlcNAc binding site [chemical binding]; other site 416269001482 lipid binding site [chemical binding]; lipid-binding site 416269001483 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 416269001484 periplasmic chaperone; Provisional; Region: PRK10780 416269001485 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 416269001486 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416269001487 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416269001488 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416269001489 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416269001490 Surface antigen; Region: Bac_surface_Ag; pfam01103 416269001491 zinc metallopeptidase RseP; Provisional; Region: PRK10779 416269001492 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 416269001493 active site 416269001494 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 416269001495 protein binding site [polypeptide binding]; other site 416269001496 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 416269001497 putative substrate binding region [chemical binding]; other site 416269001498 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 416269001499 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 416269001500 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 416269001501 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 416269001502 catalytic residue [active] 416269001503 putative FPP diphosphate binding site; other site 416269001504 putative FPP binding hydrophobic cleft; other site 416269001505 dimer interface [polypeptide binding]; other site 416269001506 putative IPP diphosphate binding site; other site 416269001507 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 416269001508 fructokinase; Reviewed; Region: PRK09557 416269001509 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416269001510 nucleotide binding site [chemical binding]; other site 416269001511 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 416269001512 active site 416269001513 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 416269001514 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 416269001515 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416269001516 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 416269001517 putative metal binding site; other site 416269001518 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 416269001519 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 416269001520 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 416269001521 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 416269001522 putative active site [active] 416269001523 argininosuccinate synthase; Validated; Region: PRK05370 416269001524 argininosuccinate synthase; Provisional; Region: PRK13820 416269001525 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 416269001526 RNA/DNA hybrid binding site [nucleotide binding]; other site 416269001527 active site 416269001528 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 416269001529 Colicin V production protein; Region: Colicin_V; cl00567 416269001530 amidophosphoribosyltransferase; Provisional; Region: PRK09246 416269001531 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 416269001532 active site 416269001533 tetramer interface [polypeptide binding]; other site 416269001534 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416269001535 active site 416269001536 glutamate dehydrogenase; Provisional; Region: PRK09414 416269001537 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 416269001538 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 416269001539 NAD(P) binding site [chemical binding]; other site 416269001540 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 416269001541 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 416269001542 Nucleoid-associated protein [General function prediction only]; Region: COG3081 416269001543 nucleoid-associated protein NdpA; Validated; Region: PRK00378 416269001544 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 416269001545 homotrimer interaction site [polypeptide binding]; other site 416269001546 putative active site [active] 416269001547 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 416269001548 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 416269001549 tartrate dehydrogenase; Region: TTC; TIGR02089 416269001550 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 416269001551 methionine sulfoxide reductase B; Provisional; Region: PRK00222 416269001552 SelR domain; Region: SelR; pfam01641 416269001553 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 416269001554 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 416269001555 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 416269001556 rod shape-determining protein MreB; Provisional; Region: PRK13927 416269001557 MreB and similar proteins; Region: MreB_like; cd10225 416269001558 nucleotide binding site [chemical binding]; other site 416269001559 Mg binding site [ion binding]; other site 416269001560 putative protofilament interaction site [polypeptide binding]; other site 416269001561 RodZ interaction site [polypeptide binding]; other site 416269001562 rod shape-determining protein MreC; Region: mreC; TIGR00219 416269001563 rod shape-determining protein MreC; Region: MreC; pfam04085 416269001564 rod shape-determining protein MreD; Region: MreD; cl01087 416269001565 recombination factor protein RarA; Reviewed; Region: PRK13342 416269001566 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 416269001567 Walker A motif; other site 416269001568 ATP binding site [chemical binding]; other site 416269001569 Walker B motif; other site 416269001570 arginine finger; other site 416269001571 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 416269001572 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 416269001573 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 416269001574 ABC-ATPase subunit interface; other site 416269001575 dimer interface [polypeptide binding]; other site 416269001576 putative PBP binding regions; other site 416269001577 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 416269001578 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 416269001579 putative active site [active] 416269001580 putative dimer interface [polypeptide binding]; other site 416269001581 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 416269001582 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 416269001583 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 416269001584 putative active site [active] 416269001585 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 416269001586 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 416269001587 trimer interface [polypeptide binding]; other site 416269001588 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 416269001589 trimer interface [polypeptide binding]; other site 416269001590 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 416269001591 trimer interface [polypeptide binding]; other site 416269001592 YadA-like C-terminal region; Region: YadA; pfam03895 416269001593 Uncharacterized conserved protein [Function unknown]; Region: COG1556 416269001594 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 416269001595 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 416269001596 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 416269001597 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 416269001598 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 416269001599 Cysteine-rich domain; Region: CCG; pfam02754 416269001600 Cysteine-rich domain; Region: CCG; pfam02754 416269001601 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 416269001602 L-lactate permease; Region: Lactate_perm; cl00701 416269001603 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 416269001604 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 416269001605 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 416269001606 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 416269001607 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 416269001608 ligand binding site [chemical binding]; other site 416269001609 calcium binding site [ion binding]; other site 416269001610 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 416269001611 CoA binding domain; Region: CoA_binding; pfam02629 416269001612 CoA-ligase; Region: Ligase_CoA; pfam00549 416269001613 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 416269001614 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 416269001615 CoA-ligase; Region: Ligase_CoA; pfam00549 416269001616 Protein of unknown function (DUF535); Region: DUF535; pfam04393 416269001617 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 416269001618 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 416269001619 E3 interaction surface; other site 416269001620 lipoyl attachment site [posttranslational modification]; other site 416269001621 e3 binding domain; Region: E3_binding; pfam02817 416269001622 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 416269001623 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 416269001624 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 416269001625 TPP-binding site [chemical binding]; other site 416269001626 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 416269001627 dimer interface [polypeptide binding]; other site 416269001628 PYR/PP interface [polypeptide binding]; other site 416269001629 TPP binding site [chemical binding]; other site 416269001630 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 416269001631 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 416269001632 putative peptidase; Provisional; Region: PRK11649 416269001633 Peptidase family M23; Region: Peptidase_M23; pfam01551 416269001634 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 416269001635 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 416269001636 dimerization domain [polypeptide binding]; other site 416269001637 dimer interface [polypeptide binding]; other site 416269001638 catalytic residues [active] 416269001639 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 416269001640 DHH family; Region: DHH; pfam01368 416269001641 DHHA1 domain; Region: DHHA1; pfam02272 416269001642 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 416269001643 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 416269001644 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 416269001645 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416269001646 ligand binding site [chemical binding]; other site 416269001647 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 416269001648 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 416269001649 active site 416269001650 motif I; other site 416269001651 motif II; other site 416269001652 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 416269001653 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 416269001654 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 416269001655 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 416269001656 dimerization interface [polypeptide binding]; other site 416269001657 Histidine kinase; Region: HisKA_3; pfam07730 416269001658 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 416269001659 ATP binding site [chemical binding]; other site 416269001660 Mg2+ binding site [ion binding]; other site 416269001661 G-X-G motif; other site 416269001662 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 416269001663 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416269001664 Coenzyme A binding pocket [chemical binding]; other site 416269001665 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 416269001666 active site 416269001667 dimerization interface [polypeptide binding]; other site 416269001668 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 416269001669 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 416269001670 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 416269001671 Potassium binding sites [ion binding]; other site 416269001672 Cesium cation binding sites [ion binding]; other site 416269001673 hypothetical protein; Provisional; Region: PRK05170 416269001674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416269001675 malonic semialdehyde reductase; Provisional; Region: PRK10538 416269001676 NAD(P) binding site [chemical binding]; other site 416269001677 active site 416269001678 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 416269001679 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 416269001680 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269001681 catalytic residue [active] 416269001682 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 416269001683 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 416269001684 substrate binding site [chemical binding]; other site 416269001685 active site 416269001686 catalytic residues [active] 416269001687 heterodimer interface [polypeptide binding]; other site 416269001688 DNA polymerase I; Provisional; Region: PRK05755 416269001689 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 416269001690 active site 416269001691 metal binding site 1 [ion binding]; metal-binding site 416269001692 putative 5' ssDNA interaction site; other site 416269001693 metal binding site 3; metal-binding site 416269001694 metal binding site 2 [ion binding]; metal-binding site 416269001695 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 416269001696 putative DNA binding site [nucleotide binding]; other site 416269001697 putative metal binding site [ion binding]; other site 416269001698 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 416269001699 active site 416269001700 catalytic site [active] 416269001701 substrate binding site [chemical binding]; other site 416269001702 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 416269001703 active site 416269001704 DNA binding site [nucleotide binding] 416269001705 catalytic site [active] 416269001706 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 416269001707 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 416269001708 Trp operon repressor; Provisional; Region: PRK01381 416269001709 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 416269001710 Transglycosylase; Region: Transgly; cl17702 416269001711 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 416269001712 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 416269001713 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 416269001714 gating phenylalanine in ion channel; other site 416269001715 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 416269001716 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 416269001717 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 416269001718 dimerization interface [polypeptide binding]; other site 416269001719 putative DNA binding site [nucleotide binding]; other site 416269001720 putative Zn2+ binding site [ion binding]; other site 416269001721 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 416269001722 dimer interface [polypeptide binding]; other site 416269001723 FMN binding site [chemical binding]; other site 416269001724 NADPH bind site [chemical binding]; other site 416269001725 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 416269001726 ATP-grasp domain; Region: ATP-grasp_4; cl17255 416269001727 Uncharacterized conserved protein [Function unknown]; Region: COG1434 416269001728 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 416269001729 putative active site [active] 416269001730 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 416269001731 Malic enzyme, N-terminal domain; Region: malic; pfam00390 416269001732 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 416269001733 putative NAD(P) binding site [chemical binding]; other site 416269001734 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 416269001735 5S rRNA interface [nucleotide binding]; other site 416269001736 CTC domain interface [polypeptide binding]; other site 416269001737 L16 interface [polypeptide binding]; other site 416269001738 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 416269001739 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 416269001740 active site 416269001741 DNA binding site [nucleotide binding] 416269001742 Int/Topo IB signature motif; other site 416269001743 DNA repair and recombination protein RadA; Validated; Region: radA; PRK04301 416269001744 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; cl17512 416269001745 Putative exonuclease, RdgC; Region: RdgC; pfam04381 416269001746 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 416269001747 AAA domain; Region: AAA_21; pfam13304 416269001748 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269001749 Walker B; other site 416269001750 D-loop; other site 416269001751 H-loop/switch region; other site 416269001752 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 416269001753 Catalytic site [active] 416269001754 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 416269001755 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 416269001756 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 416269001757 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 416269001758 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 416269001759 Protein of unknown function (DUF968); Region: DUF968; pfam06147 416269001760 Endodeoxyribonuclease RusA; Region: RusA; cl01885 416269001761 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 416269001762 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 416269001763 catalytic residues [active] 416269001764 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 416269001765 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 416269001766 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 416269001767 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 416269001768 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 416269001769 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 416269001770 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 416269001771 oligomer interface [polypeptide binding]; other site 416269001772 active site residues [active] 416269001773 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 416269001774 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 416269001775 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 416269001776 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 416269001777 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 416269001778 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 416269001779 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 416269001780 Phage-related minor tail protein [Function unknown]; Region: COG5281 416269001781 tape measure domain; Region: tape_meas_nterm; TIGR02675 416269001782 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 416269001783 Phage minor tail protein; Region: Phage_min_tail; cl01940 416269001784 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 416269001785 Phage-related protein [Function unknown]; Region: gp18; COG4672 416269001786 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 416269001787 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 416269001788 NlpC/P60 family; Region: NLPC_P60; cl17555 416269001789 Phage-related protein, tail component [Function unknown]; Region: COG4723 416269001790 Phage-related protein, tail component [Function unknown]; Region: COG4733 416269001791 Putative phage tail protein; Region: Phage-tail_3; pfam13550 416269001792 Baculovirus polyhedron envelope protein, PEP, C terminus; Region: Baculo_PEP_C; pfam04513 416269001793 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 416269001794 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 416269001795 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 416269001796 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 416269001797 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 416269001798 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 416269001799 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 416269001800 dimer interface [polypeptide binding]; other site 416269001801 conserved gate region; other site 416269001802 ABC-ATPase subunit interface; other site 416269001803 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 416269001804 ATP binding site [chemical binding]; other site 416269001805 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 416269001806 substrate interface [chemical binding]; other site 416269001807 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 416269001808 thiS-thiF/thiG interaction site; other site 416269001809 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 416269001810 phosphate binding site [ion binding]; other site 416269001811 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 416269001812 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 416269001813 FeS/SAM binding site; other site 416269001814 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 416269001815 Putative transcription activator [Transcription]; Region: TenA; COG0819 416269001816 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 416269001817 NMT1/THI5 like; Region: NMT1; pfam09084 416269001818 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 416269001819 ATP binding site [chemical binding]; other site 416269001820 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 416269001821 active site 416269001822 pyrophosphate binding site [ion binding]; other site 416269001823 thiamine phosphate binding site [chemical binding]; other site 416269001824 GTP-binding protein LepA; Provisional; Region: PRK05433 416269001825 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 416269001826 G1 box; other site 416269001827 putative GEF interaction site [polypeptide binding]; other site 416269001828 GTP/Mg2+ binding site [chemical binding]; other site 416269001829 Switch I region; other site 416269001830 G2 box; other site 416269001831 G3 box; other site 416269001832 Switch II region; other site 416269001833 G4 box; other site 416269001834 G5 box; other site 416269001835 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 416269001836 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 416269001837 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 416269001838 signal peptidase I; Provisional; Region: PRK10861 416269001839 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 416269001840 Catalytic site [active] 416269001841 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 416269001842 ribonuclease III; Reviewed; Region: rnc; PRK00102 416269001843 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 416269001844 dimerization interface [polypeptide binding]; other site 416269001845 active site 416269001846 metal binding site [ion binding]; metal-binding site 416269001847 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 416269001848 dsRNA binding site [nucleotide binding]; other site 416269001849 GTPase Era; Reviewed; Region: era; PRK00089 416269001850 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 416269001851 G1 box; other site 416269001852 GTP/Mg2+ binding site [chemical binding]; other site 416269001853 Switch I region; other site 416269001854 G2 box; other site 416269001855 Switch II region; other site 416269001856 G3 box; other site 416269001857 G4 box; other site 416269001858 G5 box; other site 416269001859 KH domain; Region: KH_2; pfam07650 416269001860 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 416269001861 Recombination protein O N terminal; Region: RecO_N; pfam11967 416269001862 Recombination protein O C terminal; Region: RecO_C; pfam02565 416269001863 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 416269001864 TadE-like protein; Region: TadE; pfam07811 416269001865 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 416269001866 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 416269001867 binding surface 416269001868 TPR motif; other site 416269001869 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 416269001870 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416269001871 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 416269001872 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416269001873 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 416269001874 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 416269001875 ATP binding site [chemical binding]; other site 416269001876 Walker A motif; other site 416269001877 hexamer interface [polypeptide binding]; other site 416269001878 Walker B motif; other site 416269001879 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 416269001880 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 416269001881 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 416269001882 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 416269001883 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 416269001884 SAF domain; Region: SAF; pfam08666 416269001885 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 416269001886 Flp/Fap pilin component; Region: Flp_Fap; cl01585 416269001887 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 416269001888 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 416269001889 ATP binding site [chemical binding]; other site 416269001890 Mg++ binding site [ion binding]; other site 416269001891 motif III; other site 416269001892 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 416269001893 nucleotide binding region [chemical binding]; other site 416269001894 ATP-binding site [chemical binding]; other site 416269001895 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 416269001896 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 416269001897 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 416269001898 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 416269001899 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 416269001900 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 416269001901 dimer interface [polypeptide binding]; other site 416269001902 conserved gate region; other site 416269001903 putative PBP binding loops; other site 416269001904 ABC-ATPase subunit interface; other site 416269001905 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 416269001906 dimer interface [polypeptide binding]; other site 416269001907 conserved gate region; other site 416269001908 putative PBP binding loops; other site 416269001909 ABC-ATPase subunit interface; other site 416269001910 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 416269001911 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 416269001912 N-terminal plug; other site 416269001913 ligand-binding site [chemical binding]; other site 416269001914 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 416269001915 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 416269001916 ABC transporter; Region: ABC_tran; pfam00005 416269001917 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 416269001918 rRNA interaction site [nucleotide binding]; other site 416269001919 S8 interaction site; other site 416269001920 putative laminin-1 binding site; other site 416269001921 elongation factor Ts; Provisional; Region: tsf; PRK09377 416269001922 UBA/TS-N domain; Region: UBA; pfam00627 416269001923 Elongation factor TS; Region: EF_TS; pfam00889 416269001924 Elongation factor TS; Region: EF_TS; pfam00889 416269001925 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 416269001926 Sulfatase; Region: Sulfatase; pfam00884 416269001927 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 416269001928 putative nucleotide binding site [chemical binding]; other site 416269001929 uridine monophosphate binding site [chemical binding]; other site 416269001930 homohexameric interface [polypeptide binding]; other site 416269001931 ribosome recycling factor; Reviewed; Region: frr; PRK00083 416269001932 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 416269001933 hinge region; other site 416269001934 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 416269001935 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416269001936 DNA-binding site [nucleotide binding]; DNA binding site 416269001937 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 416269001938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269001939 homodimer interface [polypeptide binding]; other site 416269001940 catalytic residue [active] 416269001941 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 416269001942 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 416269001943 active site 416269001944 multimer interface [polypeptide binding]; other site 416269001945 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 416269001946 imidazole glycerol phosphate synthase, glutamine amidotransferase subunit; Region: IMP_synth_hisH; TIGR01855 416269001947 predicted active site [active] 416269001948 catalytic triad [active] 416269001949 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 416269001950 nucleoside/Zn binding site; other site 416269001951 dimer interface [polypeptide binding]; other site 416269001952 catalytic motif [active] 416269001953 helicase 45; Provisional; Region: PTZ00424 416269001954 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 416269001955 ATP binding site [chemical binding]; other site 416269001956 Mg++ binding site [ion binding]; other site 416269001957 motif III; other site 416269001958 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 416269001959 nucleotide binding region [chemical binding]; other site 416269001960 ATP-binding site [chemical binding]; other site 416269001961 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 416269001962 putative RNA binding site [nucleotide binding]; other site 416269001963 lipoprotein NlpI; Provisional; Region: PRK11189 416269001964 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 416269001965 binding surface 416269001966 TPR motif; other site 416269001967 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 416269001968 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 416269001969 RNase E interface [polypeptide binding]; other site 416269001970 trimer interface [polypeptide binding]; other site 416269001971 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 416269001972 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 416269001973 RNase E interface [polypeptide binding]; other site 416269001974 trimer interface [polypeptide binding]; other site 416269001975 active site 416269001976 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 416269001977 putative nucleic acid binding region [nucleotide binding]; other site 416269001978 G-X-X-G motif; other site 416269001979 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 416269001980 RNA binding site [nucleotide binding]; other site 416269001981 domain interface; other site 416269001982 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 416269001983 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 416269001984 CAP-like domain; other site 416269001985 active site 416269001986 primary dimer interface [polypeptide binding]; other site 416269001987 condesin subunit F; Provisional; Region: PRK05260 416269001988 condesin subunit E; Provisional; Region: PRK05256 416269001989 cell division protein MukB; Provisional; Region: mukB; PRK04863 416269001990 P-loop containing region of AAA domain; Region: AAA_29; cl17516 416269001991 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 416269001992 putative arabinose transporter; Provisional; Region: PRK03545 416269001993 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 416269001994 putative substrate translocation pore; other site 416269001995 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 416269001996 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 416269001997 Sulfatase; Region: Sulfatase; cl17466 416269001998 hypothetical protein; Provisional; Region: PRK13689 416269001999 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416269002000 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416269002001 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 416269002002 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416269002003 HlyD family secretion protein; Region: HlyD_3; pfam13437 416269002004 multidrug efflux protein; Reviewed; Region: PRK09579 416269002005 Protein export membrane protein; Region: SecD_SecF; cl14618 416269002006 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 416269002007 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 416269002008 Substrate binding site; other site 416269002009 Mg++ binding site; other site 416269002010 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 416269002011 active site 416269002012 substrate binding site [chemical binding]; other site 416269002013 CoA binding site [chemical binding]; other site 416269002014 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 416269002015 CHY zinc finger; Region: zf-CHY; pfam05495 416269002016 Domain of unknown function (DUF1919); Region: DUF1919; pfam08942 416269002017 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 416269002018 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 416269002019 active site 416269002020 substrate binding site [chemical binding]; other site 416269002021 metal binding site [ion binding]; metal-binding site 416269002022 GMP synthase; Reviewed; Region: guaA; PRK00074 416269002023 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 416269002024 AMP/PPi binding site [chemical binding]; other site 416269002025 candidate oxyanion hole; other site 416269002026 catalytic triad [active] 416269002027 potential glutamine specificity residues [chemical binding]; other site 416269002028 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 416269002029 ATP Binding subdomain [chemical binding]; other site 416269002030 Ligand Binding sites [chemical binding]; other site 416269002031 Dimerization subdomain; other site 416269002032 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 416269002033 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 416269002034 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 416269002035 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 416269002036 active site 416269002037 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 416269002038 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 416269002039 S-adenosylmethionine binding site [chemical binding]; other site 416269002040 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 416269002041 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 416269002042 Walker A motif; other site 416269002043 ATP binding site [chemical binding]; other site 416269002044 Walker B motif; other site 416269002045 arginine finger; other site 416269002046 Peptidase family M41; Region: Peptidase_M41; pfam01434 416269002047 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 416269002048 aromatic amino acid transport protein; Region: araaP; TIGR00837 416269002049 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 416269002050 aromatic amino acid transport protein; Region: araaP; TIGR00837 416269002051 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 416269002052 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 416269002053 metal binding triad; other site 416269002054 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 416269002055 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416269002056 Zn2+ binding site [ion binding]; other site 416269002057 Mg2+ binding site [ion binding]; other site 416269002058 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 416269002059 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 416269002060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 416269002061 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 416269002062 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 416269002063 23S rRNA interface [nucleotide binding]; other site 416269002064 L3 interface [polypeptide binding]; other site 416269002065 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 416269002066 hypothetical protein; Validated; Region: PRK02101 416269002067 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 416269002068 Cation efflux family; Region: Cation_efflux; cl00316 416269002069 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 416269002070 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 416269002071 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 416269002072 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 416269002073 dimer interface [polypeptide binding]; other site 416269002074 FMN binding site [chemical binding]; other site 416269002075 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 416269002076 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 416269002077 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 416269002078 dimer interface [polypeptide binding]; other site 416269002079 motif 1; other site 416269002080 active site 416269002081 motif 2; other site 416269002082 motif 3; other site 416269002083 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 416269002084 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 416269002085 putative tRNA-binding site [nucleotide binding]; other site 416269002086 B3/4 domain; Region: B3_4; pfam03483 416269002087 tRNA synthetase B5 domain; Region: B5; smart00874 416269002088 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 416269002089 dimer interface [polypeptide binding]; other site 416269002090 motif 1; other site 416269002091 motif 3; other site 416269002092 motif 2; other site 416269002093 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 416269002094 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 416269002095 IHF dimer interface [polypeptide binding]; other site 416269002096 IHF - DNA interface [nucleotide binding]; other site 416269002097 NlpC/P60 family; Region: NLPC_P60; pfam00877 416269002098 putative transposase OrfB; Reviewed; Region: PHA02517 416269002099 HTH-like domain; Region: HTH_21; pfam13276 416269002100 Integrase core domain; Region: rve; pfam00665 416269002101 Integrase core domain; Region: rve_2; pfam13333 416269002102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416269002103 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269002104 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269002105 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 416269002106 AAA domain; Region: AAA_26; pfam13500 416269002107 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 416269002108 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 416269002109 ribonuclease D; Provisional; Region: PRK10829 416269002110 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 416269002111 catalytic site [active] 416269002112 putative active site [active] 416269002113 putative substrate binding site [chemical binding]; other site 416269002114 HRDC domain; Region: HRDC; pfam00570 416269002115 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 416269002116 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 416269002117 dimerization interface [polypeptide binding]; other site 416269002118 putative DNA binding site [nucleotide binding]; other site 416269002119 putative Zn2+ binding site [ion binding]; other site 416269002120 AsnC family; Region: AsnC_trans_reg; pfam01037 416269002121 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 416269002122 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 416269002123 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 416269002124 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 416269002125 Predicted metalloprotease [General function prediction only]; Region: COG2321 416269002126 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 416269002127 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 416269002128 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 416269002129 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 416269002130 Glycoprotease family; Region: Peptidase_M22; pfam00814 416269002131 thymidine kinase; Provisional; Region: PRK04296 416269002132 Protein of unknown function (DUF904); Region: DUF904; pfam06005 416269002133 fructose 1,6-bisphosphatase II; Reviewed; Region: glpX; PRK09479 416269002134 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 416269002135 active site 416269002136 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 416269002137 Uncharacterized conserved protein [Function unknown]; Region: COG0327 416269002138 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 416269002139 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416269002140 Walker A/P-loop; other site 416269002141 ATP binding site [chemical binding]; other site 416269002142 Q-loop/lid; other site 416269002143 ABC transporter signature motif; other site 416269002144 Walker B; other site 416269002145 D-loop; other site 416269002146 H-loop/switch region; other site 416269002147 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416269002148 FtsX-like permease family; Region: FtsX; pfam02687 416269002149 two-component sensor protein; Provisional; Region: cpxA; PRK09470 416269002150 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 416269002151 dimerization interface [polypeptide binding]; other site 416269002152 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 416269002153 dimer interface [polypeptide binding]; other site 416269002154 phosphorylation site [posttranslational modification] 416269002155 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 416269002156 ATP binding site [chemical binding]; other site 416269002157 Mg2+ binding site [ion binding]; other site 416269002158 G-X-G motif; other site 416269002159 two-component sensor protein; Provisional; Region: cpxA; PRK09470 416269002160 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 416269002161 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 416269002162 active site 416269002163 phosphorylation site [posttranslational modification] 416269002164 intermolecular recognition site; other site 416269002165 dimerization interface [polypeptide binding]; other site 416269002166 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 416269002167 DNA binding site [nucleotide binding] 416269002168 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 416269002169 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 416269002170 homodimer interface [polypeptide binding]; other site 416269002171 metal binding site [ion binding]; metal-binding site 416269002172 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 416269002173 active site 416269002174 putative chemical substrate binding site [chemical binding]; other site 416269002175 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 416269002176 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 416269002177 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 416269002178 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416269002179 HsdM N-terminal domain; Region: HsdM_N; pfam12161 416269002180 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 416269002181 Methyltransferase domain; Region: Methyltransf_26; pfam13659 416269002182 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 416269002183 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 416269002184 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 416269002185 Abortive infection C-terminus; Region: Abi_C; pfam14355 416269002186 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 416269002187 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 416269002188 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 416269002189 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 416269002190 ATP binding site [chemical binding]; other site 416269002191 putative Mg++ binding site [ion binding]; other site 416269002192 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 416269002193 ribosome maturation protein RimP; Reviewed; Region: PRK00092 416269002194 Sm and related proteins; Region: Sm_like; cl00259 416269002195 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 416269002196 putative oligomer interface [polypeptide binding]; other site 416269002197 putative RNA binding site [nucleotide binding]; other site 416269002198 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 416269002199 NusA N-terminal domain; Region: NusA_N; pfam08529 416269002200 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 416269002201 RNA binding site [nucleotide binding]; other site 416269002202 homodimer interface [polypeptide binding]; other site 416269002203 NusA-like KH domain; Region: KH_5; pfam13184 416269002204 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 416269002205 G-X-X-G motif; other site 416269002206 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 416269002207 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 416269002208 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 416269002209 translation initiation factor IF-2; Region: IF-2; TIGR00487 416269002210 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 416269002211 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 416269002212 G1 box; other site 416269002213 putative GEF interaction site [polypeptide binding]; other site 416269002214 GTP/Mg2+ binding site [chemical binding]; other site 416269002215 Switch I region; other site 416269002216 G2 box; other site 416269002217 G3 box; other site 416269002218 Switch II region; other site 416269002219 G4 box; other site 416269002220 G5 box; other site 416269002221 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 416269002222 Translation-initiation factor 2; Region: IF-2; pfam11987 416269002223 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 416269002224 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 416269002225 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 416269002226 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 416269002227 RNA binding site [nucleotide binding]; other site 416269002228 active site 416269002229 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 416269002230 Transglycosylase SLT domain; Region: SLT_2; pfam13406 416269002231 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 416269002232 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416269002233 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 416269002234 phosphate acetyltransferase; Reviewed; Region: PRK05632 416269002235 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 416269002236 DRTGG domain; Region: DRTGG; pfam07085 416269002237 phosphate acetyltransferase; Region: pta; TIGR00651 416269002238 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 416269002239 propionate/acetate kinase; Provisional; Region: PRK12379 416269002240 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 416269002241 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 416269002242 active site 416269002243 metal binding site [ion binding]; metal-binding site 416269002244 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 416269002245 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 416269002246 trimer interface [polypeptide binding]; other site 416269002247 eyelet of channel; other site 416269002248 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 416269002249 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 416269002250 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 416269002251 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 416269002252 active site 416269002253 tetramer interface; other site 416269002254 phosphomannomutase CpsG; Provisional; Region: PRK15414 416269002255 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 416269002256 active site 416269002257 substrate binding site [chemical binding]; other site 416269002258 metal binding site [ion binding]; metal-binding site 416269002259 carbon storage regulator; Provisional; Region: PRK01712 416269002260 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 416269002261 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 416269002262 motif 1; other site 416269002263 active site 416269002264 motif 2; other site 416269002265 motif 3; other site 416269002266 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 416269002267 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 416269002268 DHHA1 domain; Region: DHHA1; pfam02272 416269002269 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 416269002270 Ligand Binding Site [chemical binding]; other site 416269002271 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 416269002272 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 416269002273 ligand binding site [chemical binding]; other site 416269002274 flexible hinge region; other site 416269002275 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 416269002276 putative switch regulator; other site 416269002277 non-specific DNA interactions [nucleotide binding]; other site 416269002278 DNA binding site [nucleotide binding] 416269002279 sequence specific DNA binding site [nucleotide binding]; other site 416269002280 putative cAMP binding site [chemical binding]; other site 416269002281 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 416269002282 stringent starvation protein A; Provisional; Region: sspA; PRK09481 416269002283 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 416269002284 C-terminal domain interface [polypeptide binding]; other site 416269002285 putative GSH binding site (G-site) [chemical binding]; other site 416269002286 dimer interface [polypeptide binding]; other site 416269002287 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 416269002288 dimer interface [polypeptide binding]; other site 416269002289 N-terminal domain interface [polypeptide binding]; other site 416269002290 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 416269002291 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 416269002292 active site 416269002293 homotetramer interface [polypeptide binding]; other site 416269002294 homodimer interface [polypeptide binding]; other site 416269002295 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 416269002296 ATP-grasp domain; Region: ATP-grasp; pfam02222 416269002297 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 416269002298 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 416269002299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269002300 homodimer interface [polypeptide binding]; other site 416269002301 catalytic residue [active] 416269002302 proline aminopeptidase P II; Provisional; Region: PRK10879 416269002303 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 416269002304 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 416269002305 active site 416269002306 AAA domain; Region: AAA_14; pfam13173 416269002307 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 416269002308 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 416269002309 oligomeric interface; other site 416269002310 putative active site [active] 416269002311 homodimer interface [polypeptide binding]; other site 416269002312 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 416269002313 excinuclease ABC subunit B; Provisional; Region: PRK05298 416269002314 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 416269002315 ATP binding site [chemical binding]; other site 416269002316 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 416269002317 nucleotide binding region [chemical binding]; other site 416269002318 ATP-binding site [chemical binding]; other site 416269002319 Ultra-violet resistance protein B; Region: UvrB; pfam12344 416269002320 Imelysin; Region: Peptidase_M75; pfam09375 416269002321 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 416269002322 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 416269002323 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 416269002324 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 416269002325 active site 416269002326 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 416269002327 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 416269002328 putative active site [active] 416269002329 exonuclease I; Provisional; Region: sbcB; PRK11779 416269002330 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 416269002331 active site 416269002332 catalytic site [active] 416269002333 substrate binding site [chemical binding]; other site 416269002334 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 416269002335 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 416269002336 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 416269002337 putative ion selectivity filter; other site 416269002338 putative pore gating glutamate residue; other site 416269002339 putative H+/Cl- coupling transport residue; other site 416269002340 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 416269002341 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 416269002342 putative dimer interface [polypeptide binding]; other site 416269002343 putative anticodon binding site; other site 416269002344 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 416269002345 homodimer interface [polypeptide binding]; other site 416269002346 motif 1; other site 416269002347 motif 2; other site 416269002348 active site 416269002349 motif 3; other site 416269002350 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 416269002351 FeS/SAM binding site; other site 416269002352 Radical SAM superfamily; Region: Radical_SAM; pfam04055 416269002353 elongation factor P; Validated; Region: PRK00529 416269002354 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 416269002355 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 416269002356 RNA binding site [nucleotide binding]; other site 416269002357 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 416269002358 RNA binding site [nucleotide binding]; other site 416269002359 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 416269002360 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416269002361 active site 416269002362 HIGH motif; other site 416269002363 nucleotide binding site [chemical binding]; other site 416269002364 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 416269002365 KMSKS motif; other site 416269002366 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 416269002367 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 416269002368 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416269002369 putative substrate translocation pore; other site 416269002370 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 416269002371 lytic murein transglycosylase; Provisional; Region: PRK11619 416269002372 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 416269002373 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416269002374 catalytic residue [active] 416269002375 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416269002376 active site 416269002377 cystathionine gamma-synthase; Reviewed; Region: PRK08247 416269002378 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 416269002379 homodimer interface [polypeptide binding]; other site 416269002380 substrate-cofactor binding pocket; other site 416269002381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269002382 catalytic residue [active] 416269002383 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 416269002384 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 416269002385 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 416269002386 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 416269002387 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 416269002388 Protein of unknown function (DUF423); Region: DUF423; cl01008 416269002389 D-lactate dehydrogenase; Provisional; Region: PRK11183 416269002390 FAD binding domain; Region: FAD_binding_4; pfam01565 416269002391 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 416269002392 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 416269002393 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 416269002394 molybdopterin cofactor binding site [chemical binding]; other site 416269002395 substrate binding site [chemical binding]; other site 416269002396 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 416269002397 molybdopterin cofactor binding site; other site 416269002398 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 416269002399 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 416269002400 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 416269002401 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 416269002402 FeS/SAM binding site; other site 416269002403 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 416269002404 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 416269002405 trimer interface [polypeptide binding]; other site 416269002406 dimer interface [polypeptide binding]; other site 416269002407 putative active site [active] 416269002408 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 416269002409 MoaE interaction surface [polypeptide binding]; other site 416269002410 MoeB interaction surface [polypeptide binding]; other site 416269002411 thiocarboxylated glycine; other site 416269002412 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 416269002413 MoaE homodimer interface [polypeptide binding]; other site 416269002414 MoaD interaction [polypeptide binding]; other site 416269002415 active site residues [active] 416269002416 metal-binding heat shock protein; Provisional; Region: PRK00016 416269002417 Helicase; Region: Helicase_RecD; pfam05127 416269002418 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416269002419 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 416269002420 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 416269002421 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 416269002422 active site 416269002423 interdomain interaction site; other site 416269002424 putative metal-binding site [ion binding]; other site 416269002425 nucleotide binding site [chemical binding]; other site 416269002426 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 416269002427 domain I; other site 416269002428 DNA binding groove [nucleotide binding] 416269002429 phosphate binding site [ion binding]; other site 416269002430 domain II; other site 416269002431 domain III; other site 416269002432 nucleotide binding site [chemical binding]; other site 416269002433 catalytic site [active] 416269002434 domain IV; other site 416269002435 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 416269002436 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 416269002437 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 416269002438 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 416269002439 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416269002440 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416269002441 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 416269002442 putative effector binding pocket; other site 416269002443 dimerization interface [polypeptide binding]; other site 416269002444 N-acetylglutamate synthase; Validated; Region: PRK05279 416269002445 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 416269002446 putative feedback inhibition sensing region; other site 416269002447 putative nucleotide binding site [chemical binding]; other site 416269002448 putative substrate binding site [chemical binding]; other site 416269002449 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416269002450 Coenzyme A binding pocket [chemical binding]; other site 416269002451 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 416269002452 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 416269002453 hinge; other site 416269002454 active site 416269002455 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 416269002456 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 416269002457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269002458 homodimer interface [polypeptide binding]; other site 416269002459 catalytic residue [active] 416269002460 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 416269002461 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 416269002462 homodimer interface [polypeptide binding]; other site 416269002463 substrate-cofactor binding pocket; other site 416269002464 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269002465 catalytic residue [active] 416269002466 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 416269002467 homodimer interface [polypeptide binding]; other site 416269002468 substrate-cofactor binding pocket; other site 416269002469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269002470 catalytic residue [active] 416269002471 DEAD-like helicases superfamily; Region: DEXDc; smart00487 416269002472 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 416269002473 ATP binding site [chemical binding]; other site 416269002474 putative Mg++ binding site [ion binding]; other site 416269002475 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 416269002476 nucleotide binding region [chemical binding]; other site 416269002477 ATP-binding site [chemical binding]; other site 416269002478 DEAD-like helicases superfamily; Region: DEXDc; smart00487 416269002479 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 416269002480 ATP binding site [chemical binding]; other site 416269002481 putative Mg++ binding site [ion binding]; other site 416269002482 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 416269002483 DNA methylase; Region: N6_N4_Mtase; cl17433 416269002484 DNA methylase; Region: N6_N4_Mtase; pfam01555 416269002485 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416269002486 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416269002487 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 416269002488 putative active site [active] 416269002489 Domain of unknown function (DUF386); Region: DUF386; pfam04074 416269002490 exopolyphosphatase; Provisional; Region: PRK10854 416269002491 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 416269002492 hypothetical protein; Provisional; Region: PRK05423 416269002493 aspartate kinase III; Validated; Region: PRK09084 416269002494 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 416269002495 nucleotide binding site [chemical binding]; other site 416269002496 substrate binding site [chemical binding]; other site 416269002497 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 416269002498 dimer interface [polypeptide binding]; other site 416269002499 lysine allosteric regulatory site; other site 416269002500 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 416269002501 dimer interface [polypeptide binding]; other site 416269002502 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 416269002503 ATP cone domain; Region: ATP-cone; pfam03477 416269002504 YcgL domain; Region: YcgL; pfam05166 416269002505 replicative DNA helicase; Validated; Region: PRK06904 416269002506 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 416269002507 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 416269002508 Walker A motif; other site 416269002509 ATP binding site [chemical binding]; other site 416269002510 Walker B motif; other site 416269002511 DNA binding loops [nucleotide binding] 416269002512 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 416269002513 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 416269002514 putative ligand binding residues [chemical binding]; other site 416269002515 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 416269002516 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 416269002517 ABC-ATPase subunit interface; other site 416269002518 dimer interface [polypeptide binding]; other site 416269002519 putative PBP binding regions; other site 416269002520 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 416269002521 ABC-ATPase subunit interface; other site 416269002522 dimer interface [polypeptide binding]; other site 416269002523 putative PBP binding regions; other site 416269002524 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 416269002525 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 416269002526 Walker A/P-loop; other site 416269002527 ATP binding site [chemical binding]; other site 416269002528 Q-loop/lid; other site 416269002529 ABC transporter signature motif; other site 416269002530 Walker B; other site 416269002531 D-loop; other site 416269002532 H-loop/switch region; other site 416269002533 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 416269002534 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 416269002535 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 416269002536 SH3 domain-containing protein; Provisional; Region: PRK10884 416269002537 Bacterial SH3 domain homologues; Region: SH3b; smart00287 416269002538 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 416269002539 CPxP motif; other site 416269002540 Hemerythrin-like domain; Region: Hr-like; cd12108 416269002541 Fe binding site [ion binding]; other site 416269002542 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 416269002543 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 416269002544 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 416269002545 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 416269002546 DNA-binding site [nucleotide binding]; DNA binding site 416269002547 RNA-binding motif; other site 416269002548 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 416269002549 active site clefts [active] 416269002550 zinc binding site [ion binding]; other site 416269002551 dimer interface [polypeptide binding]; other site 416269002552 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 416269002553 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416269002554 PYR/PP interface [polypeptide binding]; other site 416269002555 dimer interface [polypeptide binding]; other site 416269002556 TPP binding site [chemical binding]; other site 416269002557 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 416269002558 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 416269002559 TPP-binding site [chemical binding]; other site 416269002560 dimer interface [polypeptide binding]; other site 416269002561 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 416269002562 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 416269002563 putative valine binding site [chemical binding]; other site 416269002564 dimer interface [polypeptide binding]; other site 416269002565 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 416269002566 peptidase PmbA; Provisional; Region: PRK11040 416269002567 hypothetical protein; Provisional; Region: PRK05255 416269002568 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 416269002569 aromatic acid decarboxylase; Validated; Region: PRK05920 416269002570 Flavoprotein; Region: Flavoprotein; pfam02441 416269002571 Protein of unknown function (DUF554); Region: DUF554; pfam04474 416269002572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 416269002573 translation initiation factor Sui1; Validated; Region: PRK06824 416269002574 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 416269002575 putative rRNA binding site [nucleotide binding]; other site 416269002576 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 416269002577 active site 416269002578 dimer interface [polypeptide binding]; other site 416269002579 tetratricopeptide repeat protein; Provisional; Region: PRK11788 416269002580 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 416269002581 TPR motif; other site 416269002582 binding surface 416269002583 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 416269002584 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 416269002585 IHF dimer interface [polypeptide binding]; other site 416269002586 IHF - DNA interface [nucleotide binding]; other site 416269002587 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 416269002588 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 416269002589 RNA binding site [nucleotide binding]; other site 416269002590 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 416269002591 RNA binding site [nucleotide binding]; other site 416269002592 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 416269002593 RNA binding site [nucleotide binding]; other site 416269002594 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 416269002595 RNA binding site [nucleotide binding]; other site 416269002596 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 416269002597 RNA binding site [nucleotide binding]; other site 416269002598 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 416269002599 RNA binding site [nucleotide binding]; other site 416269002600 cytidylate kinase; Provisional; Region: cmk; PRK00023 416269002601 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 416269002602 CMP-binding site; other site 416269002603 The sites determining sugar specificity; other site 416269002604 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 416269002605 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 416269002606 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 416269002607 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 416269002608 DNA topoisomerase III; Provisional; Region: PRK07726 416269002609 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 416269002610 active site 416269002611 putative interdomain interaction site [polypeptide binding]; other site 416269002612 putative metal-binding site [ion binding]; other site 416269002613 putative nucleotide binding site [chemical binding]; other site 416269002614 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 416269002615 domain I; other site 416269002616 DNA binding groove [nucleotide binding] 416269002617 phosphate binding site [ion binding]; other site 416269002618 domain II; other site 416269002619 domain III; other site 416269002620 nucleotide binding site [chemical binding]; other site 416269002621 catalytic site [active] 416269002622 domain IV; other site 416269002623 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 416269002624 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 416269002625 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 416269002626 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 416269002627 Tetramer interface [polypeptide binding]; other site 416269002628 active site 416269002629 FMN-binding site [chemical binding]; other site 416269002630 hypothetical protein; Provisional; Region: PRK11281 416269002631 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 416269002632 Mechanosensitive ion channel; Region: MS_channel; pfam00924 416269002633 hypothetical protein; Provisional; Region: PRK11281 416269002634 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 416269002635 Mechanosensitive ion channel; Region: MS_channel; pfam00924 416269002636 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 416269002637 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 416269002638 acyl-activating enzyme (AAE) consensus motif; other site 416269002639 putative AMP binding site [chemical binding]; other site 416269002640 putative active site [active] 416269002641 putative CoA binding site [chemical binding]; other site 416269002642 replication initiation regulator SeqA; Provisional; Region: PRK11187 416269002643 acyl-CoA esterase; Provisional; Region: PRK10673 416269002644 PGAP1-like protein; Region: PGAP1; pfam07819 416269002645 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 416269002646 S-adenosylmethionine binding site [chemical binding]; other site 416269002647 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 416269002648 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 416269002649 NAD binding site [chemical binding]; other site 416269002650 homotetramer interface [polypeptide binding]; other site 416269002651 homodimer interface [polypeptide binding]; other site 416269002652 substrate binding site [chemical binding]; other site 416269002653 active site 416269002654 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 416269002655 exoribonuclease II; Provisional; Region: PRK05054 416269002656 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 416269002657 RNB domain; Region: RNB; pfam00773 416269002658 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 416269002659 RNA binding site [nucleotide binding]; other site 416269002660 LrgA family; Region: LrgA; cl00608 416269002661 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 416269002662 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 416269002663 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 416269002664 active site 416269002665 metal binding site [ion binding]; metal-binding site 416269002666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 416269002667 Methyltransferase domain; Region: Methyltransf_31; pfam13847 416269002668 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 416269002669 S-adenosylmethionine binding site [chemical binding]; other site 416269002670 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 416269002671 Domain of unknown function DUF20; Region: UPF0118; pfam01594 416269002672 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 416269002673 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 416269002674 phosphate binding site [ion binding]; other site 416269002675 putative substrate binding pocket [chemical binding]; other site 416269002676 dimer interface [polypeptide binding]; other site 416269002677 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 416269002678 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 416269002679 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 416269002680 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 416269002681 Competence protein; Region: Competence; pfam03772 416269002682 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 416269002683 serine/threonine transporter SstT; Provisional; Region: PRK13628 416269002684 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 416269002685 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 416269002686 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 416269002687 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 416269002688 active site 416269002689 metal binding site [ion binding]; metal-binding site 416269002690 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 416269002691 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269002692 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 416269002693 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416269002694 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416269002695 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416269002696 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 416269002697 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 416269002698 E3 interaction surface; other site 416269002699 lipoyl attachment site [posttranslational modification]; other site 416269002700 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 416269002701 E3 interaction surface; other site 416269002702 lipoyl attachment site [posttranslational modification]; other site 416269002703 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 416269002704 E3 interaction surface; other site 416269002705 lipoyl attachment site [posttranslational modification]; other site 416269002706 e3 binding domain; Region: E3_binding; pfam02817 416269002707 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 416269002708 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 416269002709 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 416269002710 dimer interface [polypeptide binding]; other site 416269002711 TPP-binding site [chemical binding]; other site 416269002712 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 416269002713 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 416269002714 quinone interaction residues [chemical binding]; other site 416269002715 active site 416269002716 catalytic residues [active] 416269002717 FMN binding site [chemical binding]; other site 416269002718 substrate binding site [chemical binding]; other site 416269002719 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 416269002720 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 416269002721 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416269002722 active site 416269002723 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 416269002724 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 416269002725 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 416269002726 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 416269002727 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 416269002728 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416269002729 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 416269002730 Walker A/P-loop; other site 416269002731 ATP binding site [chemical binding]; other site 416269002732 Q-loop/lid; other site 416269002733 ABC transporter signature motif; other site 416269002734 Walker B; other site 416269002735 D-loop; other site 416269002736 H-loop/switch region; other site 416269002737 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 416269002738 LrgA family; Region: LrgA; cl00608 416269002739 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 416269002740 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 416269002741 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 416269002742 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 416269002743 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 416269002744 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 416269002745 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 416269002746 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 416269002747 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 416269002748 dimer interface [polypeptide binding]; other site 416269002749 ssDNA binding site [nucleotide binding]; other site 416269002750 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416269002751 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 416269002752 GIY-YIG motif/motif A; other site 416269002753 putative active site [active] 416269002754 putative metal binding site [ion binding]; other site 416269002755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269002756 AAA domain; Region: AAA_23; pfam13476 416269002757 Walker A/P-loop; other site 416269002758 ATP binding site [chemical binding]; other site 416269002759 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 416269002760 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 416269002761 Archaeal ATPase; Region: Arch_ATPase; pfam01637 416269002762 Walker A motif; other site 416269002763 ATP binding site [chemical binding]; other site 416269002764 Walker B motif; other site 416269002765 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 416269002766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416269002767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416269002768 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 416269002769 dimerization interface [polypeptide binding]; other site 416269002770 putative effector binding pocket; other site 416269002771 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 416269002772 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 416269002773 FMN binding site [chemical binding]; other site 416269002774 substrate binding site [chemical binding]; other site 416269002775 putative catalytic residue [active] 416269002776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 416269002777 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 416269002778 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416269002779 Walker A/P-loop; other site 416269002780 ATP binding site [chemical binding]; other site 416269002781 Q-loop/lid; other site 416269002782 ABC transporter signature motif; other site 416269002783 Walker B; other site 416269002784 D-loop; other site 416269002785 H-loop/switch region; other site 416269002786 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416269002787 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 416269002788 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 416269002789 putative PBP binding loops; other site 416269002790 dimer interface [polypeptide binding]; other site 416269002791 ABC-ATPase subunit interface; other site 416269002792 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 416269002793 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 416269002794 putative PBP binding loops; other site 416269002795 dimer interface [polypeptide binding]; other site 416269002796 ABC-ATPase subunit interface; other site 416269002797 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 416269002798 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 416269002799 peptide binding site [polypeptide binding]; other site 416269002800 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 416269002801 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 416269002802 Walker A motif; other site 416269002803 ATP binding site [chemical binding]; other site 416269002804 Walker B motif; other site 416269002805 arginine finger; other site 416269002806 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 416269002807 dimer interface [polypeptide binding]; other site 416269002808 active site 416269002809 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269002810 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 416269002811 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 416269002812 active site 416269002813 substrate-binding site [chemical binding]; other site 416269002814 metal-binding site [ion binding] 416269002815 ATP binding site [chemical binding]; other site 416269002816 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 416269002817 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 416269002818 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 416269002819 substrate binding site; other site 416269002820 dimer interface; other site 416269002821 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 416269002822 homotrimer interaction site [polypeptide binding]; other site 416269002823 zinc binding site [ion binding]; other site 416269002824 CDP-binding sites; other site 416269002825 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 416269002826 Sulfatase; Region: Sulfatase; pfam00884 416269002827 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 416269002828 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 416269002829 MOSC domain; Region: MOSC; pfam03473 416269002830 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 416269002831 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 416269002832 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 416269002833 substrate binding pocket [chemical binding]; other site 416269002834 chain length determination region; other site 416269002835 substrate-Mg2+ binding site; other site 416269002836 catalytic residues [active] 416269002837 aspartate-rich region 1; other site 416269002838 active site lid residues [active] 416269002839 aspartate-rich region 2; other site 416269002840 Protein of unknown function, DUF486; Region: DUF486; cl01236 416269002841 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 416269002842 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 416269002843 dimer interface [polypeptide binding]; other site 416269002844 putative anticodon binding site; other site 416269002845 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 416269002846 motif 1; other site 416269002847 active site 416269002848 motif 2; other site 416269002849 motif 3; other site 416269002850 ribonuclease G; Provisional; Region: PRK11712 416269002851 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 416269002852 homodimer interface [polypeptide binding]; other site 416269002853 oligonucleotide binding site [chemical binding]; other site 416269002854 RNB domain; Region: RNB; pfam00773 416269002855 uncharacterized domain; Region: TIGR00702 416269002856 YcaO-like family; Region: YcaO; pfam02624 416269002857 Restriction endonuclease [Defense mechanisms]; Region: COG3587 416269002858 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 416269002859 ATP binding site [chemical binding]; other site 416269002860 putative Mg++ binding site [ion binding]; other site 416269002861 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 416269002862 DNA methylase; Region: N6_N4_Mtase; cl17433 416269002863 DNA methylase; Region: N6_N4_Mtase; pfam01555 416269002864 DNA methylase; Region: N6_N4_Mtase; cl17433 416269002865 Methyltransferase domain; Region: Methyltransf_23; pfam13489 416269002866 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 416269002867 S-adenosylmethionine binding site [chemical binding]; other site 416269002868 murein transglycosylase A; Provisional; Region: mltA; PRK11162 416269002869 MltA specific insert domain; Region: MltA; smart00925 416269002870 3D domain; Region: 3D; pfam06725 416269002871 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 416269002872 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 416269002873 generic binding surface II; other site 416269002874 generic binding surface I; other site 416269002875 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 416269002876 active site 416269002877 homotetramer interface [polypeptide binding]; other site 416269002878 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 416269002879 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416269002880 DNA binding site [nucleotide binding] 416269002881 domain linker motif; other site 416269002882 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 416269002883 dimerization interface [polypeptide binding]; other site 416269002884 ligand binding site [chemical binding]; other site 416269002885 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 416269002886 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 416269002887 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 416269002888 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 416269002889 Mg2+ binding site [ion binding]; other site 416269002890 G-X-G motif; other site 416269002891 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 416269002892 anchoring element; other site 416269002893 dimer interface [polypeptide binding]; other site 416269002894 ATP binding site [chemical binding]; other site 416269002895 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 416269002896 active site 416269002897 putative metal-binding site [ion binding]; other site 416269002898 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 416269002899 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 416269002900 UbiA prenyltransferase family; Region: UbiA; pfam01040 416269002901 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 416269002902 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 416269002903 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 416269002904 adenylosuccinate lyase; Provisional; Region: PRK09285 416269002905 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 416269002906 tetramer interface [polypeptide binding]; other site 416269002907 active site 416269002908 putative lysogenization regulator; Reviewed; Region: PRK00218 416269002909 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 416269002910 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416269002911 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 416269002912 Walker A/P-loop; other site 416269002913 ATP binding site [chemical binding]; other site 416269002914 Q-loop/lid; other site 416269002915 ABC transporter signature motif; other site 416269002916 Walker B; other site 416269002917 D-loop; other site 416269002918 H-loop/switch region; other site 416269002919 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 416269002920 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416269002921 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269002922 Walker A/P-loop; other site 416269002923 ATP binding site [chemical binding]; other site 416269002924 Q-loop/lid; other site 416269002925 ABC transporter signature motif; other site 416269002926 Walker B; other site 416269002927 D-loop; other site 416269002928 H-loop/switch region; other site 416269002929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 416269002930 Family of unknown function (DUF490); Region: DUF490; pfam04357 416269002931 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 416269002932 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 416269002933 Surface antigen; Region: Bac_surface_Ag; pfam01103 416269002934 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 416269002935 NodB motif; other site 416269002936 putative active site [active] 416269002937 putative catalytic site [active] 416269002938 Zn binding site [ion binding]; other site 416269002939 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 416269002940 Bovine leukaemia virus receptor (BLVR); Region: BLVR; pfam06375 416269002941 Peptidase family M23; Region: Peptidase_M23; pfam01551 416269002942 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 416269002943 catalytic core [active] 416269002944 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 416269002945 Lysine efflux permease [General function prediction only]; Region: COG1279 416269002946 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 416269002947 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 416269002948 ATP-binding site [chemical binding]; other site 416269002949 Sugar specificity; other site 416269002950 Pyrimidine base specificity; other site 416269002951 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 416269002952 trimer interface [polypeptide binding]; other site 416269002953 active site 416269002954 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416269002955 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416269002956 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 416269002957 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416269002958 Walker A/P-loop; other site 416269002959 ATP binding site [chemical binding]; other site 416269002960 Q-loop/lid; other site 416269002961 ABC transporter signature motif; other site 416269002962 Walker B; other site 416269002963 D-loop; other site 416269002964 H-loop/switch region; other site 416269002965 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269002966 Walker A/P-loop; other site 416269002967 ATP binding site [chemical binding]; other site 416269002968 Q-loop/lid; other site 416269002969 ABC transporter signature motif; other site 416269002970 Walker B; other site 416269002971 D-loop; other site 416269002972 H-loop/switch region; other site 416269002973 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 416269002974 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 416269002975 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 416269002976 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 416269002977 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 416269002978 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 416269002979 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 416269002980 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 416269002981 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 416269002982 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 416269002983 ligand binding site [chemical binding]; other site 416269002984 homodimer interface [polypeptide binding]; other site 416269002985 NAD(P) binding site [chemical binding]; other site 416269002986 trimer interface B [polypeptide binding]; other site 416269002987 trimer interface A [polypeptide binding]; other site 416269002988 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 416269002989 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 416269002990 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 416269002991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 416269002992 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 416269002993 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 416269002994 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 416269002995 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 416269002996 active site 416269002997 motif I; other site 416269002998 motif II; other site 416269002999 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 416269003000 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 416269003001 catalytic triad [active] 416269003002 HemN family oxidoreductase; Provisional; Region: PRK05660 416269003003 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 416269003004 FeS/SAM binding site; other site 416269003005 HemN C-terminal domain; Region: HemN_C; pfam06969 416269003006 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 416269003007 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 416269003008 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416269003009 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 416269003010 dimer interface [polypeptide binding]; other site 416269003011 conserved gate region; other site 416269003012 ABC-ATPase subunit interface; other site 416269003013 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 416269003014 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 416269003015 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 416269003016 dimer interface [polypeptide binding]; other site 416269003017 conserved gate region; other site 416269003018 putative PBP binding loops; other site 416269003019 ABC-ATPase subunit interface; other site 416269003020 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 416269003021 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416269003022 Walker A/P-loop; other site 416269003023 ATP binding site [chemical binding]; other site 416269003024 Q-loop/lid; other site 416269003025 ABC transporter signature motif; other site 416269003026 Walker B; other site 416269003027 D-loop; other site 416269003028 H-loop/switch region; other site 416269003029 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416269003030 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 416269003031 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416269003032 Walker A/P-loop; other site 416269003033 ATP binding site [chemical binding]; other site 416269003034 Q-loop/lid; other site 416269003035 ABC transporter signature motif; other site 416269003036 Walker B; other site 416269003037 D-loop; other site 416269003038 H-loop/switch region; other site 416269003039 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416269003040 L-aspartate oxidase; Provisional; Region: PRK06175 416269003041 L-aspartate oxidase; Region: nadB; TIGR00551 416269003042 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 416269003043 substrate binding site [chemical binding]; other site 416269003044 THF binding site; other site 416269003045 zinc-binding site [ion binding]; other site 416269003046 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 416269003047 FAD binding site [chemical binding]; other site 416269003048 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 416269003049 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 416269003050 peptide binding site [polypeptide binding]; other site 416269003051 serine transporter; Region: stp; TIGR00814 416269003052 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 416269003053 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 416269003054 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 416269003055 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 416269003056 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 416269003057 Uncharacterized conserved protein [Function unknown]; Region: COG4121 416269003058 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 416269003059 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 416269003060 active site 416269003061 ribulose/triose binding site [chemical binding]; other site 416269003062 phosphate binding site [ion binding]; other site 416269003063 substrate (anthranilate) binding pocket [chemical binding]; other site 416269003064 product (indole) binding pocket [chemical binding]; other site 416269003065 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 416269003066 active site 416269003067 mobile mystery protein B; Region: mob_myst_B; TIGR02613 416269003068 Fic/DOC family; Region: Fic; pfam02661 416269003069 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 416269003070 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 416269003071 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 416269003072 probable active site [active] 416269003073 hypothetical protein; Provisional; Region: PRK05114 416269003074 Uncharacterized conserved protein [Function unknown]; Region: COG3025 416269003075 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 416269003076 putative active site [active] 416269003077 putative metal binding residues [ion binding]; other site 416269003078 signature motif; other site 416269003079 putative triphosphate binding site [ion binding]; other site 416269003080 YcjX-like family, DUF463; Region: DUF463; pfam04317 416269003081 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 416269003082 SmpB-tmRNA interface; other site 416269003083 seryl-tRNA synthetase; Provisional; Region: PRK05431 416269003084 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 416269003085 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 416269003086 dimer interface [polypeptide binding]; other site 416269003087 active site 416269003088 motif 1; other site 416269003089 motif 2; other site 416269003090 motif 3; other site 416269003091 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 416269003092 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 416269003093 putative metal binding site [ion binding]; other site 416269003094 dimer interface [polypeptide binding]; other site 416269003095 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 416269003096 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 416269003097 active site pocket [active] 416269003098 oxyanion hole [active] 416269003099 catalytic triad [active] 416269003100 active site nucleophile [active] 416269003101 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 416269003102 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 416269003103 HIGH motif; other site 416269003104 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 416269003105 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416269003106 active site 416269003107 KMSKS motif; other site 416269003108 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 416269003109 tRNA binding surface [nucleotide binding]; other site 416269003110 Lipopolysaccharide-assembly; Region: LptE; cl01125 416269003111 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 416269003112 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 416269003113 Domain of unknown function (DUF329); Region: DUF329; pfam03884 416269003114 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 416269003115 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 416269003116 CoA-binding site [chemical binding]; other site 416269003117 ATP-binding [chemical binding]; other site 416269003118 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 416269003119 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416269003120 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416269003121 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 416269003122 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 416269003123 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 416269003124 Walker A motif; other site 416269003125 ATP binding site [chemical binding]; other site 416269003126 Walker B motif; other site 416269003127 putative major pilin subunit; Provisional; Region: PRK10574 416269003128 DNA repair protein RadA; Provisional; Region: PRK11823 416269003129 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 416269003130 Walker A motif/ATP binding site; other site 416269003131 ATP binding site [chemical binding]; other site 416269003132 Walker B motif; other site 416269003133 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 416269003134 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 416269003135 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 416269003136 folate binding site [chemical binding]; other site 416269003137 NADP+ binding site [chemical binding]; other site 416269003138 gamma-glutamyl kinase; Provisional; Region: PRK05429 416269003139 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 416269003140 nucleotide binding site [chemical binding]; other site 416269003141 homotetrameric interface [polypeptide binding]; other site 416269003142 putative phosphate binding site [ion binding]; other site 416269003143 putative allosteric binding site; other site 416269003144 PUA domain; Region: PUA; pfam01472 416269003145 hypothetical protein; Provisional; Region: PRK10621 416269003146 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 416269003147 endonuclease III; Provisional; Region: PRK10702 416269003148 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 416269003149 minor groove reading motif; other site 416269003150 helix-hairpin-helix signature motif; other site 416269003151 substrate binding pocket [chemical binding]; other site 416269003152 active site 416269003153 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 416269003154 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 416269003155 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 416269003156 dimer interface [polypeptide binding]; other site 416269003157 active site 416269003158 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 416269003159 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 416269003160 substrate binding site [chemical binding]; other site 416269003161 trimer interface [polypeptide binding]; other site 416269003162 oxyanion hole (OAH) forming residues; other site 416269003163 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 416269003164 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 416269003165 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 416269003166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 416269003167 Membrane transport protein; Region: Mem_trans; cl09117 416269003168 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 416269003169 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 416269003170 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 416269003171 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 416269003172 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 416269003173 molybdopterin cofactor binding site; other site 416269003174 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 416269003175 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 416269003176 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 416269003177 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 416269003178 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 416269003179 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 416269003180 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 416269003181 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 416269003182 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 416269003183 homodimer interface [polypeptide binding]; other site 416269003184 NADP binding site [chemical binding]; other site 416269003185 substrate binding site [chemical binding]; other site 416269003186 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 416269003187 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 416269003188 putative substrate translocation pore; other site 416269003189 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 416269003190 dihydrodipicolinate synthase; Region: dapA; TIGR00674 416269003191 dimer interface [polypeptide binding]; other site 416269003192 active site 416269003193 catalytic residue [active] 416269003194 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 416269003195 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 416269003196 putative acyl-acceptor binding pocket; other site 416269003197 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 416269003198 30S subunit binding site; other site 416269003199 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 416269003200 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 416269003201 dimerization interface 3.5A [polypeptide binding]; other site 416269003202 active site 416269003203 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 416269003204 homodecamer interface [polypeptide binding]; other site 416269003205 GTP cyclohydrolase I; Provisional; Region: PLN03044 416269003206 active site 416269003207 putative catalytic site residues [active] 416269003208 zinc binding site [ion binding]; other site 416269003209 GTP-CH-I/GFRP interaction surface; other site 416269003210 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 416269003211 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 416269003212 active site 416269003213 ATP binding site [chemical binding]; other site 416269003214 Uncharacterized conserved protein [Function unknown]; Region: COG4925 416269003215 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 416269003216 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 416269003217 trimer interface [polypeptide binding]; other site 416269003218 active site 416269003219 substrate binding site [chemical binding]; other site 416269003220 CoA binding site [chemical binding]; other site 416269003221 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 416269003222 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416269003223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416269003224 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 416269003225 putative effector binding pocket; other site 416269003226 putative dimerization interface [polypeptide binding]; other site 416269003227 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 416269003228 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 416269003229 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 416269003230 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 416269003231 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 416269003232 dimer interface [polypeptide binding]; other site 416269003233 conserved gate region; other site 416269003234 ABC-ATPase subunit interface; other site 416269003235 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 416269003236 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 416269003237 Walker A/P-loop; other site 416269003238 ATP binding site [chemical binding]; other site 416269003239 Q-loop/lid; other site 416269003240 ABC transporter signature motif; other site 416269003241 Walker B; other site 416269003242 D-loop; other site 416269003243 H-loop/switch region; other site 416269003244 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 416269003245 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 416269003246 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 416269003247 active site 416269003248 HIGH motif; other site 416269003249 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 416269003250 KMSKS motif; other site 416269003251 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 416269003252 tRNA binding surface [nucleotide binding]; other site 416269003253 anticodon binding site; other site 416269003254 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 416269003255 substrate binding site [chemical binding]; other site 416269003256 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 416269003257 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 416269003258 active site 416269003259 NTP binding site [chemical binding]; other site 416269003260 metal binding triad [ion binding]; metal-binding site 416269003261 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 416269003262 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416269003263 Zn2+ binding site [ion binding]; other site 416269003264 Mg2+ binding site [ion binding]; other site 416269003265 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416269003266 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269003267 HTH-like domain; Region: HTH_21; pfam13276 416269003268 Integrase core domain; Region: rve; pfam00665 416269003269 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 416269003270 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 416269003271 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 416269003272 Tetratricopeptide repeat; Region: TPR_16; pfam13432 416269003273 Protein of unknown function (DUF560); Region: DUF560; pfam04575 416269003274 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269003275 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 416269003276 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 416269003277 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 416269003278 catalytic loop [active] 416269003279 iron binding site [ion binding]; other site 416269003280 chaperone protein HscA; Provisional; Region: hscA; PRK05183 416269003281 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 416269003282 nucleotide binding site [chemical binding]; other site 416269003283 putative NEF/HSP70 interaction site [polypeptide binding]; other site 416269003284 SBD interface [polypeptide binding]; other site 416269003285 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 416269003286 Protein of unknown function, DUF606; Region: DUF606; pfam04657 416269003287 co-chaperone HscB; Provisional; Region: hscB; PRK01773 416269003288 DnaJ domain; Region: DnaJ; pfam00226 416269003289 HSP70 interaction site [polypeptide binding]; other site 416269003290 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 416269003291 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 416269003292 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 416269003293 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 416269003294 trimerization site [polypeptide binding]; other site 416269003295 active site 416269003296 cysteine desulfurase; Provisional; Region: PRK14012 416269003297 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 416269003298 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416269003299 catalytic residue [active] 416269003300 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 416269003301 Rrf2 family protein; Region: rrf2_super; TIGR00738 416269003302 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 416269003303 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 416269003304 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 416269003305 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 416269003306 DNA binding site [nucleotide binding] 416269003307 active site 416269003308 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416269003309 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 416269003310 dimer interface [polypeptide binding]; other site 416269003311 phosphorylation site [posttranslational modification] 416269003312 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 416269003313 ATP binding site [chemical binding]; other site 416269003314 Mg2+ binding site [ion binding]; other site 416269003315 G-X-G motif; other site 416269003316 Response regulator receiver domain; Region: Response_reg; pfam00072 416269003317 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 416269003318 active site 416269003319 phosphorylation site [posttranslational modification] 416269003320 intermolecular recognition site; other site 416269003321 dimerization interface [polypeptide binding]; other site 416269003322 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 416269003323 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 416269003324 hypothetical protein; Provisional; Region: PRK04946 416269003325 Smr domain; Region: Smr; pfam01713 416269003326 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 416269003327 AAA domain; Region: AAA_26; pfam13500 416269003328 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 416269003329 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 416269003330 S-adenosylmethionine binding site [chemical binding]; other site 416269003331 Protein of unknown function (DUF452); Region: DUF452; cl01062 416269003332 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 416269003333 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 416269003334 substrate-cofactor binding pocket; other site 416269003335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269003336 catalytic residue [active] 416269003337 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 416269003338 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 416269003339 inhibitor-cofactor binding pocket; inhibition site 416269003340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269003341 catalytic residue [active] 416269003342 HemK family putative methylases; Region: hemK_fam; TIGR00536 416269003343 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 416269003344 S-adenosylmethionine binding site [chemical binding]; other site 416269003345 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 416269003346 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 416269003347 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 416269003348 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 416269003349 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 416269003350 Predicted acetyltransferase [General function prediction only]; Region: COG2388 416269003351 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 416269003352 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 416269003353 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 416269003354 Winged helix-turn helix; Region: HTH_29; pfam13551 416269003355 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269003356 Integrase core domain; Region: rve; pfam00665 416269003357 Integrase core domain; Region: rve_3; pfam13683 416269003358 FRG domain; Region: FRG; cl07460 416269003359 Domain of unknown function (DUF955); Region: DUF955; pfam06114 416269003360 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 416269003361 salt bridge; other site 416269003362 non-specific DNA binding site [nucleotide binding]; other site 416269003363 sequence-specific DNA binding site [nucleotide binding]; other site 416269003364 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 416269003365 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 416269003366 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 416269003367 RTX N-terminal domain; Region: RTX; pfam02382 416269003368 RTX C-terminal domain; Region: RTX_C; pfam08339 416269003369 metal-binding heat shock protein; Provisional; Region: PRK00016 416269003370 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 416269003371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416269003372 Coenzyme A binding pocket [chemical binding]; other site 416269003373 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 416269003374 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 416269003375 purine monophosphate binding site [chemical binding]; other site 416269003376 dimer interface [polypeptide binding]; other site 416269003377 putative catalytic residues [active] 416269003378 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 416269003379 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 416269003380 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 416269003381 haemagglutination activity domain; Region: Haemagg_act; pfam05860 416269003382 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 416269003383 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 416269003384 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 416269003385 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 416269003386 OstA-like protein; Region: OstA; pfam03968 416269003387 Organic solvent tolerance protein; Region: OstA_C; pfam04453 416269003388 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 416269003389 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 416269003390 FeS/SAM binding site; other site 416269003391 HemN C-terminal domain; Region: HemN_C; pfam06969 416269003392 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 416269003393 Der GTPase activator; Provisional; Region: PRK05244 416269003394 putative transporter; Validated; Region: PRK03818 416269003395 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 416269003396 TrkA-C domain; Region: TrkA_C; pfam02080 416269003397 TrkA-C domain; Region: TrkA_C; pfam02080 416269003398 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 416269003399 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 416269003400 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 416269003401 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 416269003402 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 416269003403 metal binding triad; other site 416269003404 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 416269003405 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 416269003406 metal binding triad; other site 416269003407 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 416269003408 YciI-like protein; Reviewed; Region: PRK11370 416269003409 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 416269003410 intracellular septation protein A; Reviewed; Region: PRK00259 416269003411 Protein of unknown function, DUF412; Region: DUF412; pfam04217 416269003412 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 416269003413 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 416269003414 Ligand Binding Site [chemical binding]; other site 416269003415 Predicted permease [General function prediction only]; Region: COG2056 416269003416 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 416269003417 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 416269003418 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 416269003419 putative catalytic site [active] 416269003420 putative phosphate binding site [ion binding]; other site 416269003421 active site 416269003422 metal binding site A [ion binding]; metal-binding site 416269003423 DNA binding site [nucleotide binding] 416269003424 putative AP binding site [nucleotide binding]; other site 416269003425 putative metal binding site B [ion binding]; other site 416269003426 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416269003427 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 416269003428 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 416269003429 putative dimerization interface [polypeptide binding]; other site 416269003430 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 416269003431 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 416269003432 putative active site [active] 416269003433 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 416269003434 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 416269003435 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 416269003436 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 416269003437 transketolase; Reviewed; Region: PRK12753 416269003438 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 416269003439 TPP-binding site [chemical binding]; other site 416269003440 dimer interface [polypeptide binding]; other site 416269003441 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 416269003442 PYR/PP interface [polypeptide binding]; other site 416269003443 dimer interface [polypeptide binding]; other site 416269003444 TPP binding site [chemical binding]; other site 416269003445 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 416269003446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416269003447 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269003448 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269003449 HTH-like domain; Region: HTH_21; pfam13276 416269003450 Integrase core domain; Region: rve; pfam00665 416269003451 Integrase core domain; Region: rve_2; pfam13333 416269003452 heat shock protein 90; Provisional; Region: PRK05218 416269003453 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 416269003454 ATP binding site [chemical binding]; other site 416269003455 Mg2+ binding site [ion binding]; other site 416269003456 G-X-G motif; other site 416269003457 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 416269003458 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 416269003459 tetramer interface [polypeptide binding]; other site 416269003460 heme binding pocket [chemical binding]; other site 416269003461 NADPH binding site [chemical binding]; other site 416269003462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416269003463 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269003464 Integrase core domain; Region: rve; pfam00665 416269003465 Integrase core domain; Region: rve_2; pfam13333 416269003466 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 416269003467 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416269003468 putative active site [active] 416269003469 putative metal binding site [ion binding]; other site 416269003470 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 416269003471 ATP cone domain; Region: ATP-cone; pfam03477 416269003472 Class I ribonucleotide reductase; Region: RNR_I; cd01679 416269003473 active site 416269003474 dimer interface [polypeptide binding]; other site 416269003475 catalytic residues [active] 416269003476 effector binding site; other site 416269003477 R2 peptide binding site; other site 416269003478 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 416269003479 dimer interface [polypeptide binding]; other site 416269003480 putative radical transfer pathway; other site 416269003481 diiron center [ion binding]; other site 416269003482 tyrosyl radical; other site 416269003483 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 416269003484 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 416269003485 dimer interface [polypeptide binding]; other site 416269003486 active site 416269003487 galactokinase; Provisional; Region: PRK05101 416269003488 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 416269003489 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 416269003490 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 416269003491 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 416269003492 active site 416269003493 catalytic residues [active] 416269003494 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 416269003495 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 416269003496 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 416269003497 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 416269003498 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 416269003499 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 416269003500 RTX C-terminal domain; Region: RTX_C; pfam08339 416269003501 antiporter inner membrane protein; Provisional; Region: PRK11670 416269003502 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 416269003503 Walker A motif; other site 416269003504 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 416269003505 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 416269003506 peptide binding site [polypeptide binding]; other site 416269003507 hypothetical protein; Provisional; Region: PRK11111 416269003508 periplasmic folding chaperone; Provisional; Region: PRK10788 416269003509 SurA N-terminal domain; Region: SurA_N_3; cl07813 416269003510 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 416269003511 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 416269003512 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 416269003513 16S/18S rRNA binding site [nucleotide binding]; other site 416269003514 S13e-L30e interaction site [polypeptide binding]; other site 416269003515 25S rRNA binding site [nucleotide binding]; other site 416269003516 Protein of unknown function (DUF808); Region: DUF808; pfam05661 416269003517 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 416269003518 HemY protein N-terminus; Region: HemY_N; pfam07219 416269003519 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 416269003520 TPR motif; other site 416269003521 binding surface 416269003522 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 416269003523 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 416269003524 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 416269003525 active site 416269003526 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 416269003527 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 416269003528 domain interfaces; other site 416269003529 active site 416269003530 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 416269003531 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 416269003532 putative catalytic cysteine [active] 416269003533 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 416269003534 putative active site [active] 416269003535 metal binding site [ion binding]; metal-binding site 416269003536 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 416269003537 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 416269003538 ring oligomerisation interface [polypeptide binding]; other site 416269003539 ATP/Mg binding site [chemical binding]; other site 416269003540 stacking interactions; other site 416269003541 hinge regions; other site 416269003542 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 416269003543 oligomerisation interface [polypeptide binding]; other site 416269003544 mobile loop; other site 416269003545 roof hairpin; other site 416269003546 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 416269003547 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 416269003548 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 416269003549 intersubunit interface [polypeptide binding]; other site 416269003550 active site 416269003551 catalytic residue [active] 416269003552 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 416269003553 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 416269003554 Nucleoside recognition; Region: Gate; pfam07670 416269003555 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 416269003556 Predicted membrane protein [Function unknown]; Region: COG2364 416269003557 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416269003558 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416269003559 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 416269003560 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 416269003561 active site 416269003562 intersubunit interface [polypeptide binding]; other site 416269003563 catalytic residue [active] 416269003564 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 416269003565 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416269003566 substrate binding site [chemical binding]; other site 416269003567 ATP binding site [chemical binding]; other site 416269003568 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 416269003569 Glucuronate isomerase; Region: UxaC; cl00829 416269003570 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 416269003571 putative active site [active] 416269003572 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 416269003573 putative catalytic site [active] 416269003574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416269003575 DNA-binding site [nucleotide binding]; DNA binding site 416269003576 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 416269003577 EamA-like transporter family; Region: EamA; pfam00892 416269003578 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 416269003579 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 416269003580 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 416269003581 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416269003582 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 416269003583 active site 416269003584 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 416269003585 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 416269003586 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 416269003587 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 416269003588 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 416269003589 Uncharacterized conserved protein [Function unknown]; Region: COG1434 416269003590 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 416269003591 putative active site [active] 416269003592 primosome assembly protein PriA; Validated; Region: PRK05580 416269003593 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 416269003594 ATP binding site [chemical binding]; other site 416269003595 putative Mg++ binding site [ion binding]; other site 416269003596 helicase superfamily c-terminal domain; Region: HELICc; smart00490 416269003597 ATP-binding site [chemical binding]; other site 416269003598 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 416269003599 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 416269003600 Prephenate dehydratase; Region: PDT; pfam00800 416269003601 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 416269003602 putative L-Phe binding site [chemical binding]; other site 416269003603 oligopeptidase A; Provisional; Region: PRK10911 416269003604 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 416269003605 active site 416269003606 Zn binding site [ion binding]; other site 416269003607 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 416269003608 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 416269003609 FeS/SAM binding site; other site 416269003610 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 416269003611 Pyruvate formate lyase 1; Region: PFL1; cd01678 416269003612 coenzyme A binding site [chemical binding]; other site 416269003613 active site 416269003614 catalytic residues [active] 416269003615 glycine loop; other site 416269003616 formate transporter FocA; Region: formate_focA; TIGR04060 416269003617 Predicted membrane protein [Function unknown]; Region: COG1238 416269003618 heat shock protein HtpX; Provisional; Region: PRK05457 416269003619 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 416269003620 active site 416269003621 DNA polymerase IV; Validated; Region: PRK02406 416269003622 DNA binding site [nucleotide binding] 416269003623 Predicted membrane protein [Function unknown]; Region: COG2431 416269003624 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 416269003625 chorismate binding enzyme; Region: Chorismate_bind; cl10555 416269003626 aminotransferase AlaT; Validated; Region: PRK09265 416269003627 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 416269003628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269003629 homodimer interface [polypeptide binding]; other site 416269003630 catalytic residue [active] 416269003631 Predicted permeases [General function prediction only]; Region: RarD; COG2962 416269003632 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 416269003633 Predicted permeases [General function prediction only]; Region: RarD; COG2962 416269003634 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 416269003635 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 416269003636 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 416269003637 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 416269003638 ligand-binding site [chemical binding]; other site 416269003639 heme utilization protein HutZ; Region: heme_HutZ; TIGR04110 416269003640 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 416269003641 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 416269003642 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416269003643 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 416269003644 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 416269003645 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 416269003646 TrkA-N domain; Region: TrkA_N; pfam02254 416269003647 adenylate cyclase; Provisional; Region: cyaA; PRK09450 416269003648 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 416269003649 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 416269003650 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 416269003651 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 416269003652 dimer interface [polypeptide binding]; other site 416269003653 active site 416269003654 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416269003655 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269003656 HTH-like domain; Region: HTH_21; pfam13276 416269003657 Integrase core domain; Region: rve; pfam00665 416269003658 Integrase core domain; Region: rve_2; pfam13333 416269003659 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 416269003660 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 416269003661 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 416269003662 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 416269003663 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 416269003664 active site 416269003665 phosphorylation site [posttranslational modification] 416269003666 intermolecular recognition site; other site 416269003667 dimerization interface [polypeptide binding]; other site 416269003668 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 416269003669 DNA binding site [nucleotide binding] 416269003670 sensor protein QseC; Provisional; Region: PRK10337 416269003671 HAMP domain; Region: HAMP; pfam00672 416269003672 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 416269003673 dimer interface [polypeptide binding]; other site 416269003674 phosphorylation site [posttranslational modification] 416269003675 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 416269003676 ATP binding site [chemical binding]; other site 416269003677 G-X-G motif; other site 416269003678 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 416269003679 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 416269003680 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 416269003681 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 416269003682 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 416269003683 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 416269003684 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 416269003685 Protein export membrane protein; Region: SecD_SecF; pfam02355 416269003686 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 416269003687 Ferritin-like domain; Region: Ferritin; pfam00210 416269003688 ferroxidase diiron center [ion binding]; other site 416269003689 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 416269003690 Ferritin-like domain; Region: Ferritin; pfam00210 416269003691 ferroxidase diiron center [ion binding]; other site 416269003692 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 416269003693 Sulfate transporter family; Region: Sulfate_transp; pfam00916 416269003694 Maf-like protein; Region: Maf; pfam02545 416269003695 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 416269003696 active site 416269003697 dimer interface [polypeptide binding]; other site 416269003698 Uncharacterized conserved protein [Function unknown]; Region: COG2128 416269003699 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 416269003700 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 416269003701 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 416269003702 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 416269003703 Ligand Binding Site [chemical binding]; other site 416269003704 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 416269003705 active site residue [active] 416269003706 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 416269003707 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 416269003708 GDP-binding site [chemical binding]; other site 416269003709 ACT binding site; other site 416269003710 IMP binding site; other site 416269003711 FtsH protease regulator HflC; Provisional; Region: PRK11029 416269003712 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 416269003713 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 416269003714 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 416269003715 HflK protein; Region: hflK; TIGR01933 416269003716 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 416269003717 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416269003718 catalytic residues [active] 416269003719 xanthine permease; Region: pbuX; TIGR03173 416269003720 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 416269003721 S-adenosylmethionine synthetase; Validated; Region: PRK05250 416269003722 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 416269003723 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 416269003724 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 416269003725 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 416269003726 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 416269003727 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 416269003728 acetylornithine deacetylase; Provisional; Region: PRK05111 416269003729 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 416269003730 metal binding site [ion binding]; metal-binding site 416269003731 putative dimer interface [polypeptide binding]; other site 416269003732 OmpW family; Region: OmpW; cl17427 416269003733 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 416269003734 Clp amino terminal domain; Region: Clp_N; pfam02861 416269003735 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 416269003736 Walker A motif; other site 416269003737 ATP binding site [chemical binding]; other site 416269003738 Walker B motif; other site 416269003739 arginine finger; other site 416269003740 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 416269003741 Walker A motif; other site 416269003742 ATP binding site [chemical binding]; other site 416269003743 Walker B motif; other site 416269003744 arginine finger; other site 416269003745 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 416269003746 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 416269003747 arsenical-resistance protein; Region: acr3; TIGR00832 416269003748 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 416269003749 ArsC family; Region: ArsC; pfam03960 416269003750 catalytic residues [active] 416269003751 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 416269003752 putative DNA binding site [nucleotide binding]; other site 416269003753 putative Zn2+ binding site [ion binding]; other site 416269003754 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 416269003755 Aspartase; Region: Aspartase; cd01357 416269003756 active sites [active] 416269003757 tetramer interface [polypeptide binding]; other site 416269003758 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 416269003759 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 416269003760 EamA-like transporter family; Region: EamA; pfam00892 416269003761 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 416269003762 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416269003763 DNA-binding site [nucleotide binding]; DNA binding site 416269003764 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 416269003765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269003766 homodimer interface [polypeptide binding]; other site 416269003767 catalytic residue [active] 416269003768 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 416269003769 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 416269003770 dimerization interface [polypeptide binding]; other site 416269003771 putative ATP binding site [chemical binding]; other site 416269003772 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 416269003773 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 416269003774 active site 416269003775 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 416269003776 Ligand Binding Site [chemical binding]; other site 416269003777 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 416269003778 active site 416269003779 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 416269003780 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 416269003781 FeS/SAM binding site; other site 416269003782 multifunctional aminopeptidase A; Provisional; Region: PRK00913 416269003783 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 416269003784 interface (dimer of trimers) [polypeptide binding]; other site 416269003785 Substrate-binding/catalytic site; other site 416269003786 Zn-binding sites [ion binding]; other site 416269003787 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 416269003788 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 416269003789 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 416269003790 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 416269003791 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 416269003792 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 416269003793 putative active site [active] 416269003794 putative PHP Thumb interface [polypeptide binding]; other site 416269003795 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 416269003796 generic binding surface II; other site 416269003797 generic binding surface I; other site 416269003798 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 416269003799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416269003800 ATP-grasp domain; Region: ATP-grasp; pfam02222 416269003801 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 416269003802 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 416269003803 putative acyl-acceptor binding pocket; other site 416269003804 LexA repressor; Validated; Region: PRK00215 416269003805 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 416269003806 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 416269003807 Catalytic site [active] 416269003808 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 416269003809 putative DNA-binding cleft [nucleotide binding]; other site 416269003810 putative DNA clevage site; other site 416269003811 molecular lever; other site 416269003812 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 416269003813 beta-hexosaminidase; Provisional; Region: PRK05337 416269003814 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 416269003815 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 416269003816 enolase; Provisional; Region: eno; PRK00077 416269003817 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 416269003818 dimer interface [polypeptide binding]; other site 416269003819 metal binding site [ion binding]; metal-binding site 416269003820 substrate binding pocket [chemical binding]; other site 416269003821 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 416269003822 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 416269003823 nudix motif; other site 416269003824 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 416269003825 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 416269003826 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 416269003827 ATP binding site [chemical binding]; other site 416269003828 putative Mg++ binding site [ion binding]; other site 416269003829 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 416269003830 nucleotide binding region [chemical binding]; other site 416269003831 ATP-binding site [chemical binding]; other site 416269003832 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 416269003833 HRDC domain; Region: HRDC; pfam00570 416269003834 frataxin-like protein; Provisional; Region: cyaY; PRK00446 416269003835 putative iron binding site [ion binding]; other site 416269003836 UGMP family protein; Validated; Region: PRK09604 416269003837 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 416269003838 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 416269003839 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 416269003840 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 416269003841 RNA binding surface [nucleotide binding]; other site 416269003842 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 416269003843 active site 416269003844 YwiC-like protein; Region: YwiC; pfam14256 416269003845 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 416269003846 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 416269003847 active site 416269003848 ADP/pyrophosphate binding site [chemical binding]; other site 416269003849 dimerization interface [polypeptide binding]; other site 416269003850 allosteric effector site; other site 416269003851 fructose-1,6-bisphosphate binding site; other site 416269003852 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 416269003853 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 416269003854 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416269003855 catalytic residue [active] 416269003856 Staphylococcal nuclease homologues; Region: SNc; smart00318 416269003857 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 416269003858 Catalytic site; other site 416269003859 Excalibur calcium-binding domain; Region: Excalibur; cl05460 416269003860 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 416269003861 amino acid carrier protein; Region: agcS; TIGR00835 416269003862 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 416269003863 Domain of unknown function DUF20; Region: UPF0118; pfam01594 416269003864 Cytochrome b562; Region: Cytochrom_B562; pfam07361 416269003865 putative protease; Provisional; Region: PRK15452 416269003866 Peptidase family U32; Region: Peptidase_U32; pfam01136 416269003867 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 416269003868 O-Antigen ligase; Region: Wzy_C; pfam04932 416269003869 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 416269003870 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 416269003871 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 416269003872 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 416269003873 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 416269003874 active site 416269003875 (T/H)XGH motif; other site 416269003876 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 416269003877 catalytic site [active] 416269003878 putative active site [active] 416269003879 putative substrate binding site [chemical binding]; other site 416269003880 dimer interface [polypeptide binding]; other site 416269003881 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 416269003882 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 416269003883 active site 416269003884 metal binding site [ion binding]; metal-binding site 416269003885 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416269003886 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 416269003887 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 416269003888 active site 416269003889 dimer interface [polypeptide binding]; other site 416269003890 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 416269003891 dimer interface [polypeptide binding]; other site 416269003892 active site 416269003893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 416269003894 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 416269003895 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 416269003896 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 416269003897 shikimate binding site; other site 416269003898 NAD(P) binding site [chemical binding]; other site 416269003899 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 416269003900 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 416269003901 recombination regulator RecX; Reviewed; Region: recX; PRK00117 416269003902 recombinase A; Provisional; Region: recA; PRK09354 416269003903 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 416269003904 hexamer interface [polypeptide binding]; other site 416269003905 Walker A motif; other site 416269003906 ATP binding site [chemical binding]; other site 416269003907 Walker B motif; other site 416269003908 hypothetical protein; Provisional; Region: PRK07101 416269003909 substrate-cofactor binding pocket; other site 416269003910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269003911 catalytic residue [active] 416269003912 para-aminobenzoate synthase component I; Validated; Region: PRK07093 416269003913 RmuC family; Region: RmuC; pfam02646 416269003914 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 416269003915 Glutamine amidotransferase class-I; Region: GATase; pfam00117 416269003916 glutamine binding [chemical binding]; other site 416269003917 catalytic triad [active] 416269003918 Domain of unknown function DUF302; Region: DUF302; cl01364 416269003919 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 416269003920 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 416269003921 dimer interface [polypeptide binding]; other site 416269003922 anticodon binding site; other site 416269003923 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 416269003924 homodimer interface [polypeptide binding]; other site 416269003925 motif 1; other site 416269003926 active site 416269003927 motif 2; other site 416269003928 GAD domain; Region: GAD; pfam02938 416269003929 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 416269003930 active site 416269003931 motif 3; other site 416269003932 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 416269003933 nudix motif; other site 416269003934 hypothetical protein; Validated; Region: PRK00110 416269003935 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 416269003936 active site 416269003937 putative DNA-binding cleft [nucleotide binding]; other site 416269003938 dimer interface [polypeptide binding]; other site 416269003939 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 416269003940 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 416269003941 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 416269003942 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 416269003943 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 416269003944 THF binding site; other site 416269003945 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 416269003946 substrate binding site [chemical binding]; other site 416269003947 THF binding site; other site 416269003948 zinc-binding site [ion binding]; other site 416269003949 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 416269003950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416269003951 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 416269003952 putative dimerization interface [polypeptide binding]; other site 416269003953 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 416269003954 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 416269003955 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 416269003956 RNA binding surface [nucleotide binding]; other site 416269003957 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 416269003958 probable active site [active] 416269003959 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 416269003960 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 416269003961 anthranilate synthase component I; Provisional; Region: PRK13564 416269003962 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 416269003963 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 416269003964 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 416269003965 Glutamine amidotransferase class-I; Region: GATase; pfam00117 416269003966 glutamine binding [chemical binding]; other site 416269003967 catalytic triad [active] 416269003968 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 416269003969 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 416269003970 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 416269003971 Methyltransferase domain; Region: Methyltransf_31; pfam13847 416269003972 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 416269003973 S-adenosylmethionine binding site [chemical binding]; other site 416269003974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 416269003975 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 416269003976 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 416269003977 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 416269003978 primosomal replication protein N; Provisional; Region: PRK02801 416269003979 generic binding surface II; other site 416269003980 generic binding surface I; other site 416269003981 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 416269003982 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 416269003983 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 416269003984 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 416269003985 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 416269003986 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 416269003987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 416269003988 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 416269003989 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 416269003990 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 416269003991 dimer interface [polypeptide binding]; other site 416269003992 motif 1; other site 416269003993 active site 416269003994 motif 2; other site 416269003995 motif 3; other site 416269003996 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 416269003997 anticodon binding site; other site 416269003998 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 416269003999 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 416269004000 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 416269004001 cytoskeletal protein RodZ; Provisional; Region: PRK10856 416269004002 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 416269004003 non-specific DNA binding site [nucleotide binding]; other site 416269004004 salt bridge; other site 416269004005 sequence-specific DNA binding site [nucleotide binding]; other site 416269004006 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 416269004007 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 416269004008 Sulfate transporter family; Region: Sulfate_transp; pfam00916 416269004009 argininosuccinate lyase; Provisional; Region: PRK04833 416269004010 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 416269004011 active sites [active] 416269004012 tetramer interface [polypeptide binding]; other site 416269004013 putative oxidoreductase; Provisional; Region: PRK11579 416269004014 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 416269004015 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 416269004016 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 416269004017 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 416269004018 TrkA-N domain; Region: TrkA_N; pfam02254 416269004019 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 416269004020 AAA domain; Region: AAA_14; pfam13173 416269004021 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 416269004022 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 416269004023 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 416269004024 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416269004025 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416269004026 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 416269004027 putative effector binding pocket; other site 416269004028 dimerization interface [polypeptide binding]; other site 416269004029 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 416269004030 MULE transposase domain; Region: MULE; pfam10551 416269004031 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 416269004032 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 416269004033 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416269004034 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 416269004035 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416269004036 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 416269004037 putative substrate binding pocket [chemical binding]; other site 416269004038 putative dimerization interface [polypeptide binding]; other site 416269004039 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 416269004040 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 416269004041 active site 416269004042 FMN binding site [chemical binding]; other site 416269004043 substrate binding site [chemical binding]; other site 416269004044 homotetramer interface [polypeptide binding]; other site 416269004045 catalytic residue [active] 416269004046 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 416269004047 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 416269004048 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 416269004049 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 416269004050 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 416269004051 Methyltransferase domain; Region: Methyltransf_26; pfam13659 416269004052 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 416269004053 Divergent AAA domain; Region: AAA_4; pfam04326 416269004054 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 416269004055 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 416269004056 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 416269004057 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 416269004058 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 416269004059 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 416269004060 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 416269004061 dimer interface [polypeptide binding]; other site 416269004062 FMN binding site [chemical binding]; other site 416269004063 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 416269004064 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 416269004065 additional DNA contacts [nucleotide binding]; other site 416269004066 mismatch recognition site; other site 416269004067 active site 416269004068 zinc binding site [ion binding]; other site 416269004069 DNA intercalation site [nucleotide binding]; other site 416269004070 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 416269004071 Mg2+ binding site [ion binding]; other site 416269004072 G-X-G motif; other site 416269004073 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; pfam09509 416269004074 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 416269004075 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 416269004076 cofactor binding site; other site 416269004077 DNA binding site [nucleotide binding] 416269004078 substrate interaction site [chemical binding]; other site 416269004079 Protein of unknown function, DUF479; Region: DUF479; cl01203 416269004080 S-formylglutathione hydrolase; Region: PLN02442 416269004081 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 416269004082 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 416269004083 C-terminal domain interface [polypeptide binding]; other site 416269004084 GSH binding site (G-site) [chemical binding]; other site 416269004085 dimer interface [polypeptide binding]; other site 416269004086 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 416269004087 N-terminal domain interface [polypeptide binding]; other site 416269004088 dimer interface [polypeptide binding]; other site 416269004089 substrate binding pocket (H-site) [chemical binding]; other site 416269004090 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 416269004091 oligomeric interface; other site 416269004092 putative active site [active] 416269004093 homodimer interface [polypeptide binding]; other site 416269004094 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 416269004095 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 416269004096 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 416269004097 substrate binding site [chemical binding]; other site 416269004098 catalytic Zn binding site [ion binding]; other site 416269004099 NAD binding site [chemical binding]; other site 416269004100 structural Zn binding site [ion binding]; other site 416269004101 dimer interface [polypeptide binding]; other site 416269004102 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 416269004103 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 416269004104 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 416269004105 Uncharacterized conserved protein [Function unknown]; Region: COG1801 416269004106 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 416269004107 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 416269004108 gating phenylalanine in ion channel; other site 416269004109 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 416269004110 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416269004111 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 416269004112 motif II; other site 416269004113 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 416269004114 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416269004115 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416269004116 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269004117 Walker A/P-loop; other site 416269004118 ATP binding site [chemical binding]; other site 416269004119 Q-loop/lid; other site 416269004120 ABC transporter signature motif; other site 416269004121 Walker B; other site 416269004122 D-loop; other site 416269004123 H-loop/switch region; other site 416269004124 S-ribosylhomocysteinase; Provisional; Region: PRK02260 416269004125 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 416269004126 mce related protein; Region: MCE; pfam02470 416269004127 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 416269004128 mce related protein; Region: MCE; pfam02470 416269004129 mce related protein; Region: MCE; pfam02470 416269004130 mce related protein; Region: MCE; pfam02470 416269004131 ferric uptake regulator; Provisional; Region: fur; PRK09462 416269004132 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 416269004133 metal binding site 2 [ion binding]; metal-binding site 416269004134 putative DNA binding helix; other site 416269004135 metal binding site 1 [ion binding]; metal-binding site 416269004136 dimer interface [polypeptide binding]; other site 416269004137 structural Zn2+ binding site [ion binding]; other site 416269004138 flavodoxin FldA; Validated; Region: PRK09267 416269004139 LexA regulated protein; Provisional; Region: PRK11675 416269004140 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 416269004141 putative deacylase active site [active] 416269004142 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 416269004143 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 416269004144 DsrE/DsrF-like family; Region: DrsE; cl00672 416269004145 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269004146 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 416269004147 rRNA binding site [nucleotide binding]; other site 416269004148 predicted 30S ribosome binding site; other site 416269004149 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 416269004150 phosphoserine phosphatase SerB; Region: serB; TIGR00338 416269004151 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416269004152 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 416269004153 motif II; other site 416269004154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 416269004155 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 416269004156 maltodextrin phosphorylase; Provisional; Region: PRK14985 416269004157 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 416269004158 active site pocket [active] 416269004159 transcriptional regulator MalT; Provisional; Region: PRK04841 416269004160 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 416269004161 binding surface 416269004162 TPR motif; other site 416269004163 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 416269004164 DNA binding residues [nucleotide binding] 416269004165 dimerization interface [polypeptide binding]; other site 416269004166 maltose regulon periplasmic protein; Provisional; Region: PRK10564 416269004167 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 416269004168 trimer interface; other site 416269004169 sugar binding site [chemical binding]; other site 416269004170 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 416269004171 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 416269004172 Walker A/P-loop; other site 416269004173 ATP binding site [chemical binding]; other site 416269004174 Q-loop/lid; other site 416269004175 ABC transporter signature motif; other site 416269004176 Walker B; other site 416269004177 D-loop; other site 416269004178 H-loop/switch region; other site 416269004179 TOBE domain; Region: TOBE_2; pfam08402 416269004180 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 416269004181 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 416269004182 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 416269004183 dimer interface [polypeptide binding]; other site 416269004184 conserved gate region; other site 416269004185 putative PBP binding loops; other site 416269004186 ABC-ATPase subunit interface; other site 416269004187 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416269004188 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 416269004189 dimer interface [polypeptide binding]; other site 416269004190 conserved gate region; other site 416269004191 putative PBP binding loops; other site 416269004192 ABC-ATPase subunit interface; other site 416269004193 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 416269004194 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 416269004195 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 416269004196 Carbon starvation protein CstA; Region: CstA; pfam02554 416269004197 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 416269004198 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 416269004199 active site 416269004200 glutathione reductase; Validated; Region: PRK06116 416269004201 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416269004202 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416269004203 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416269004204 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269004205 hypothetical protein; Provisional; Region: PRK05208 416269004206 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 416269004207 dimer interface [polypeptide binding]; other site 416269004208 FMN binding site [chemical binding]; other site 416269004209 Predicted membrane protein [Function unknown]; Region: COG4541 416269004210 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 416269004211 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 416269004212 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416269004213 Walker A/P-loop; other site 416269004214 ATP binding site [chemical binding]; other site 416269004215 Q-loop/lid; other site 416269004216 ABC transporter signature motif; other site 416269004217 Walker B; other site 416269004218 D-loop; other site 416269004219 H-loop/switch region; other site 416269004220 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 416269004221 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 416269004222 active site 416269004223 intersubunit interface [polypeptide binding]; other site 416269004224 zinc binding site [ion binding]; other site 416269004225 Na+ binding site [ion binding]; other site 416269004226 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 416269004227 Phosphoglycerate kinase; Region: PGK; pfam00162 416269004228 substrate binding site [chemical binding]; other site 416269004229 hinge regions; other site 416269004230 ADP binding site [chemical binding]; other site 416269004231 catalytic site [active] 416269004232 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 416269004233 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 416269004234 transmembrane helices; other site 416269004235 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 416269004236 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 416269004237 transmembrane helices; other site 416269004238 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 416269004239 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 416269004240 transmembrane helices; other site 416269004241 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 416269004242 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 416269004243 ATP binding site [chemical binding]; other site 416269004244 Mg2+ binding site [ion binding]; other site 416269004245 G-X-G motif; other site 416269004246 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 416269004247 anchoring element; other site 416269004248 dimer interface [polypeptide binding]; other site 416269004249 ATP binding site [chemical binding]; other site 416269004250 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 416269004251 active site 416269004252 putative metal-binding site [ion binding]; other site 416269004253 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 416269004254 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 416269004255 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 416269004256 putative active site [active] 416269004257 heme pocket [chemical binding]; other site 416269004258 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 416269004259 dimer interface [polypeptide binding]; other site 416269004260 phosphorylation site [posttranslational modification] 416269004261 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 416269004262 ATP binding site [chemical binding]; other site 416269004263 Mg2+ binding site [ion binding]; other site 416269004264 G-X-G motif; other site 416269004265 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 416269004266 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 416269004267 active site 416269004268 phosphorylation site [posttranslational modification] 416269004269 intermolecular recognition site; other site 416269004270 dimerization interface [polypeptide binding]; other site 416269004271 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 416269004272 DNA binding site [nucleotide binding] 416269004273 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 416269004274 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 416269004275 Walker A/P-loop; other site 416269004276 ATP binding site [chemical binding]; other site 416269004277 Q-loop/lid; other site 416269004278 ABC transporter signature motif; other site 416269004279 Walker B; other site 416269004280 D-loop; other site 416269004281 H-loop/switch region; other site 416269004282 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 416269004283 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 416269004284 dimer interface [polypeptide binding]; other site 416269004285 conserved gate region; other site 416269004286 putative PBP binding loops; other site 416269004287 ABC-ATPase subunit interface; other site 416269004288 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 416269004289 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 416269004290 dimer interface [polypeptide binding]; other site 416269004291 conserved gate region; other site 416269004292 putative PBP binding loops; other site 416269004293 ABC-ATPase subunit interface; other site 416269004294 PBP superfamily domain; Region: PBP_like_2; cl17296 416269004295 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 416269004296 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 416269004297 DNA binding residues [nucleotide binding] 416269004298 dimer interface [polypeptide binding]; other site 416269004299 copper binding site [ion binding]; other site 416269004300 Predicted metal-binding protein [General function prediction only]; Region: COG3019 416269004301 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 416269004302 metal-binding site [ion binding] 416269004303 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 416269004304 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 416269004305 metal-binding site [ion binding] 416269004306 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416269004307 Soluble P-type ATPase [General function prediction only]; Region: COG4087 416269004308 short chain dehydrogenase; Provisional; Region: PRK05993 416269004309 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 416269004310 NADP binding site [chemical binding]; other site 416269004311 active site 416269004312 steroid binding site; other site 416269004313 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 416269004314 putative FMN binding site [chemical binding]; other site 416269004315 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 416269004316 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 416269004317 tandem repeat interface [polypeptide binding]; other site 416269004318 oligomer interface [polypeptide binding]; other site 416269004319 active site residues [active] 416269004320 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 416269004321 tandem repeat interface [polypeptide binding]; other site 416269004322 oligomer interface [polypeptide binding]; other site 416269004323 active site residues [active] 416269004324 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 416269004325 B1 nucleotide binding pocket [chemical binding]; other site 416269004326 B2 nucleotide binding pocket [chemical binding]; other site 416269004327 CAS motifs; other site 416269004328 active site 416269004329 hypothetical protein; Provisional; Region: PRK04860 416269004330 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 416269004331 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 416269004332 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416269004333 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 416269004334 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 416269004335 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 416269004336 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 416269004337 RNA binding site [nucleotide binding]; other site 416269004338 TPR repeat; Region: TPR_11; pfam13414 416269004339 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 416269004340 binding surface 416269004341 TPR motif; other site 416269004342 TPR repeat; Region: TPR_11; pfam13414 416269004343 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 416269004344 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 416269004345 DNA binding site [nucleotide binding] 416269004346 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 416269004347 FeS/SAM binding site; other site 416269004348 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 416269004349 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 416269004350 HIGH motif; other site 416269004351 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 416269004352 active site 416269004353 KMSKS motif; other site 416269004354 antitoxin YefM; Provisional; Region: PRK11409 416269004355 Uncharacterized conserved protein [Function unknown]; Region: COG2835 416269004356 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 416269004357 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 416269004358 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 416269004359 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 416269004360 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 416269004361 Walker A motif; other site 416269004362 ATP binding site [chemical binding]; other site 416269004363 Walker B motif; other site 416269004364 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 416269004365 Clp protease; Region: CLP_protease; pfam00574 416269004366 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 416269004367 oligomer interface [polypeptide binding]; other site 416269004368 active site residues [active] 416269004369 Fe-S metabolism associated domain; Region: SufE; cl00951 416269004370 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 416269004371 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 416269004372 active site 416269004373 catalytic site [active] 416269004374 substrate binding site [chemical binding]; other site 416269004375 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 416269004376 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416269004377 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416269004378 ABC transporter; Region: ABC_tran_2; pfam12848 416269004379 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416269004380 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 416269004381 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 416269004382 active site residue [active] 416269004383 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 416269004384 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 416269004385 hinge; other site 416269004386 active site 416269004387 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 416269004388 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 416269004389 anti sigma factor interaction site; other site 416269004390 regulatory phosphorylation site [posttranslational modification]; other site 416269004391 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 416269004392 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 416269004393 mce related protein; Region: MCE; pfam02470 416269004394 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 416269004395 Permease; Region: Permease; cl00510 416269004396 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 416269004397 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 416269004398 Walker A/P-loop; other site 416269004399 ATP binding site [chemical binding]; other site 416269004400 Q-loop/lid; other site 416269004401 ABC transporter signature motif; other site 416269004402 Walker B; other site 416269004403 D-loop; other site 416269004404 H-loop/switch region; other site 416269004405 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 416269004406 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 416269004407 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 416269004408 protein binding site [polypeptide binding]; other site 416269004409 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 416269004410 protein binding site [polypeptide binding]; other site 416269004411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416269004412 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 416269004413 NAD(P) binding site [chemical binding]; other site 416269004414 active site 416269004415 arginine repressor; Provisional; Region: PRK05066 416269004416 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 416269004417 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 416269004418 malate dehydrogenase; Provisional; Region: PRK05086 416269004419 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 416269004420 NAD binding site [chemical binding]; other site 416269004421 dimerization interface [polypeptide binding]; other site 416269004422 Substrate binding site [chemical binding]; other site 416269004423 adenylate kinase; Reviewed; Region: adk; PRK00279 416269004424 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 416269004425 AMP-binding site [chemical binding]; other site 416269004426 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 416269004427 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 416269004428 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 416269004429 N-terminal plug; other site 416269004430 ligand-binding site [chemical binding]; other site 416269004431 muropeptide transporter; Reviewed; Region: ampG; PRK11902 416269004432 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 416269004433 putative substrate translocation pore; other site 416269004434 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 416269004435 UDP-glucose 4-epimerase; Region: PLN02240 416269004436 NAD binding site [chemical binding]; other site 416269004437 homodimer interface [polypeptide binding]; other site 416269004438 active site 416269004439 substrate binding site [chemical binding]; other site 416269004440 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 416269004441 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 416269004442 nucleotide binding pocket [chemical binding]; other site 416269004443 K-X-D-G motif; other site 416269004444 catalytic site [active] 416269004445 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 416269004446 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 416269004447 Dimer interface [polypeptide binding]; other site 416269004448 BRCT sequence motif; other site 416269004449 cell division protein ZipA; Provisional; Region: PRK01741 416269004450 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 416269004451 FtsZ protein binding site [polypeptide binding]; other site 416269004452 putative sulfate transport protein CysZ; Validated; Region: PRK04949 416269004453 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 416269004454 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 416269004455 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 416269004456 benzoate transport; Region: 2A0115; TIGR00895 416269004457 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 416269004458 putative substrate translocation pore; other site 416269004459 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 416269004460 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 416269004461 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 416269004462 putative active site [active] 416269004463 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 416269004464 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 416269004465 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 416269004466 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 416269004467 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 416269004468 active site 416269004469 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 416269004470 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 416269004471 dimer interface [polypeptide binding]; other site 416269004472 ADP-ribose binding site [chemical binding]; other site 416269004473 active site 416269004474 nudix motif; other site 416269004475 metal binding site [ion binding]; metal-binding site 416269004476 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 416269004477 RNA binding surface [nucleotide binding]; other site 416269004478 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 416269004479 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 416269004480 dimerization interface [polypeptide binding]; other site 416269004481 domain crossover interface; other site 416269004482 redox-dependent activation switch; other site 416269004483 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 416269004484 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 416269004485 ornithine carbamoyltransferase; Provisional; Region: PRK01713 416269004486 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 416269004487 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 416269004488 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 416269004489 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 416269004490 putative substrate binding site [chemical binding]; other site 416269004491 nucleotide binding site [chemical binding]; other site 416269004492 nucleotide binding site [chemical binding]; other site 416269004493 homodimer interface [polypeptide binding]; other site 416269004494 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 416269004495 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 416269004496 active site turn [active] 416269004497 phosphorylation site [posttranslational modification] 416269004498 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 416269004499 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 416269004500 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 416269004501 Walker A/P-loop; other site 416269004502 ATP binding site [chemical binding]; other site 416269004503 Q-loop/lid; other site 416269004504 ABC transporter signature motif; other site 416269004505 Walker B; other site 416269004506 D-loop; other site 416269004507 H-loop/switch region; other site 416269004508 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 416269004509 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 416269004510 dimer interface [polypeptide binding]; other site 416269004511 conserved gate region; other site 416269004512 putative PBP binding loops; other site 416269004513 ABC-ATPase subunit interface; other site 416269004514 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 416269004515 dimer interface [polypeptide binding]; other site 416269004516 conserved gate region; other site 416269004517 putative PBP binding loops; other site 416269004518 ABC-ATPase subunit interface; other site 416269004519 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 416269004520 dimerization domain swap beta strand [polypeptide binding]; other site 416269004521 regulatory protein interface [polypeptide binding]; other site 416269004522 active site 416269004523 regulatory phosphorylation site [posttranslational modification]; other site 416269004524 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 416269004525 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 416269004526 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 416269004527 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 416269004528 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 416269004529 HPr interaction site; other site 416269004530 glycerol kinase (GK) interaction site [polypeptide binding]; other site 416269004531 active site 416269004532 phosphorylation site [posttranslational modification] 416269004533 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 416269004534 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 416269004535 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 416269004536 FeS/SAM binding site; other site 416269004537 TRAM domain; Region: TRAM; pfam01938 416269004538 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 416269004539 Part of AAA domain; Region: AAA_19; pfam13245 416269004540 Family description; Region: UvrD_C_2; pfam13538 416269004541 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 416269004542 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 416269004543 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 416269004544 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 416269004545 dimerization interface [polypeptide binding]; other site 416269004546 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 416269004547 ATP binding site [chemical binding]; other site 416269004548 Acylphosphatase; Region: Acylphosphatase; pfam00708 416269004549 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 416269004550 HypF finger; Region: zf-HYPF; pfam07503 416269004551 HypF finger; Region: zf-HYPF; pfam07503 416269004552 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 416269004553 hydrogenase 2 small subunit; Provisional; Region: PRK10468 416269004554 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 416269004555 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 416269004556 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 416269004557 4Fe-4S binding domain; Region: Fer4_6; pfam12837 416269004558 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 416269004559 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 416269004560 hydrogenase 2 large subunit; Provisional; Region: PRK10467 416269004561 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 416269004562 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 416269004563 putative substrate-binding site; other site 416269004564 nickel binding site [ion binding]; other site 416269004565 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 416269004566 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 416269004567 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 416269004568 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 416269004569 transcription-repair coupling factor; Provisional; Region: PRK10689 416269004570 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 416269004571 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 416269004572 ATP binding site [chemical binding]; other site 416269004573 putative Mg++ binding site [ion binding]; other site 416269004574 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 416269004575 nucleotide binding region [chemical binding]; other site 416269004576 ATP-binding site [chemical binding]; other site 416269004577 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 416269004578 aminopeptidase N; Provisional; Region: pepN; PRK14015 416269004579 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 416269004580 active site 416269004581 Zn binding site [ion binding]; other site 416269004582 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 416269004583 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 416269004584 homooctamer interface [polypeptide binding]; other site 416269004585 active site 416269004586 cytidine deaminase; Provisional; Region: PRK09027 416269004587 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 416269004588 active site 416269004589 catalytic motif [active] 416269004590 Zn binding site [ion binding]; other site 416269004591 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 416269004592 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 416269004593 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 416269004594 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 416269004595 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269004596 Walker A/P-loop; other site 416269004597 ATP binding site [chemical binding]; other site 416269004598 Q-loop/lid; other site 416269004599 ABC transporter signature motif; other site 416269004600 Walker B; other site 416269004601 D-loop; other site 416269004602 H-loop/switch region; other site 416269004603 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 416269004604 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 416269004605 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 416269004606 P loop; other site 416269004607 GTP binding site [chemical binding]; other site 416269004608 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 416269004609 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 416269004610 dsDNA-mimic protein; Reviewed; Region: PRK05094 416269004611 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 416269004612 tellurite resistance protein TehB; Provisional; Region: PRK12335 416269004613 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 416269004614 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 416269004615 S-adenosylmethionine binding site [chemical binding]; other site 416269004616 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416269004617 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 416269004618 dimer interface [polypeptide binding]; other site 416269004619 conserved gate region; other site 416269004620 putative PBP binding loops; other site 416269004621 ABC-ATPase subunit interface; other site 416269004622 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416269004623 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 416269004624 dimer interface [polypeptide binding]; other site 416269004625 conserved gate region; other site 416269004626 putative PBP binding loops; other site 416269004627 ABC-ATPase subunit interface; other site 416269004628 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 416269004629 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 416269004630 substrate binding pocket [chemical binding]; other site 416269004631 membrane-bound complex binding site; other site 416269004632 hinge residues; other site 416269004633 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 416269004634 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269004635 Walker A/P-loop; other site 416269004636 ATP binding site [chemical binding]; other site 416269004637 Q-loop/lid; other site 416269004638 ABC transporter signature motif; other site 416269004639 Walker B; other site 416269004640 D-loop; other site 416269004641 H-loop/switch region; other site 416269004642 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 416269004643 substrate binding site [chemical binding]; other site 416269004644 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 416269004645 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 416269004646 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 416269004647 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 416269004648 salt bridge; other site 416269004649 non-specific DNA binding site [nucleotide binding]; other site 416269004650 sequence-specific DNA binding site [nucleotide binding]; other site 416269004651 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 416269004652 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 416269004653 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 416269004654 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 416269004655 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 416269004656 DsbD alpha interface [polypeptide binding]; other site 416269004657 catalytic residues [active] 416269004658 Protein of unknown function, DUF462; Region: DUF462; pfam04315 416269004659 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 416269004660 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 416269004661 putative SAM binding site [chemical binding]; other site 416269004662 putative homodimer interface [polypeptide binding]; other site 416269004663 LppC putative lipoprotein; Region: LppC; pfam04348 416269004664 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 416269004665 putative ligand binding site [chemical binding]; other site 416269004666 hypothetical protein; Reviewed; Region: PRK12497 416269004667 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 416269004668 dimer interface [polypeptide binding]; other site 416269004669 active site 416269004670 outer membrane lipoprotein; Provisional; Region: PRK11023 416269004671 BON domain; Region: BON; pfam04972 416269004672 bacterial OsmY and nodulation domain; Region: BON; smart00749 416269004673 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 416269004674 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 416269004675 substrate binding pocket [chemical binding]; other site 416269004676 membrane-bound complex binding site; other site 416269004677 hinge residues; other site 416269004678 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 416269004679 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416269004680 catalytic residue [active] 416269004681 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 416269004682 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 416269004683 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 416269004684 heme exporter protein CcmC; Region: ccmC; TIGR01191 416269004685 heme exporter protein CcmB; Region: ccmB; TIGR01190 416269004686 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 416269004687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269004688 Walker A/P-loop; other site 416269004689 ATP binding site [chemical binding]; other site 416269004690 Q-loop/lid; other site 416269004691 ABC transporter signature motif; other site 416269004692 Walker B; other site 416269004693 D-loop; other site 416269004694 H-loop/switch region; other site 416269004695 DNA replication initiation factor; Validated; Region: PRK06893 416269004696 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 416269004697 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 416269004698 oxaloacetate decarboxylase; Provisional; Region: PRK14040 416269004699 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 416269004700 active site 416269004701 catalytic residues [active] 416269004702 metal binding site [ion binding]; metal-binding site 416269004703 homodimer binding site [polypeptide binding]; other site 416269004704 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 416269004705 carboxyltransferase (CT) interaction site; other site 416269004706 biotinylation site [posttranslational modification]; other site 416269004707 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 416269004708 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 416269004709 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 416269004710 PhnA protein; Region: PhnA; pfam03831 416269004711 Haem-binding domain; Region: Haem_bd; pfam14376 416269004712 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 416269004713 hypothetical protein; Validated; Region: PRK05090 416269004714 YGGT family; Region: YGGT; pfam02325 416269004715 YGGT family; Region: YGGT; pfam02325 416269004716 hypothetical protein; Provisional; Region: PRK11702 416269004717 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 416269004718 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 416269004719 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 416269004720 dimer interface [polypeptide binding]; other site 416269004721 active site 416269004722 CoA binding pocket [chemical binding]; other site 416269004723 putative phosphate acyltransferase; Provisional; Region: PRK05331 416269004724 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 416269004725 hypothetical protein; Provisional; Region: PRK11193 416269004726 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 416269004727 hypothetical protein; Provisional; Region: PRK11573 416269004728 Domain of unknown function DUF21; Region: DUF21; pfam01595 416269004729 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 416269004730 Transporter associated domain; Region: CorC_HlyC; smart01091 416269004731 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 416269004732 Na2 binding site [ion binding]; other site 416269004733 putative substrate binding site 1 [chemical binding]; other site 416269004734 Na binding site 1 [ion binding]; other site 416269004735 putative substrate binding site 2 [chemical binding]; other site 416269004736 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 416269004737 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 416269004738 active pocket/dimerization site; other site 416269004739 active site 416269004740 phosphorylation site [posttranslational modification] 416269004741 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 416269004742 active site 416269004743 phosphorylation site [posttranslational modification] 416269004744 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 416269004745 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 416269004746 hypothetical protein; Provisional; Region: PRK02913 416269004747 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 416269004748 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 416269004749 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 416269004750 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269004751 elongation factor Tu; Reviewed; Region: PRK00049 416269004752 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 416269004753 G1 box; other site 416269004754 GEF interaction site [polypeptide binding]; other site 416269004755 GTP/Mg2+ binding site [chemical binding]; other site 416269004756 Switch I region; other site 416269004757 G2 box; other site 416269004758 G3 box; other site 416269004759 Switch II region; other site 416269004760 G4 box; other site 416269004761 G5 box; other site 416269004762 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 416269004763 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 416269004764 Antibiotic Binding Site [chemical binding]; other site 416269004765 elongation factor G; Reviewed; Region: PRK00007 416269004766 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 416269004767 G1 box; other site 416269004768 putative GEF interaction site [polypeptide binding]; other site 416269004769 GTP/Mg2+ binding site [chemical binding]; other site 416269004770 Switch I region; other site 416269004771 G2 box; other site 416269004772 G3 box; other site 416269004773 Switch II region; other site 416269004774 G4 box; other site 416269004775 G5 box; other site 416269004776 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 416269004777 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 416269004778 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 416269004779 30S ribosomal protein S7; Validated; Region: PRK05302 416269004780 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 416269004781 S17 interaction site [polypeptide binding]; other site 416269004782 S8 interaction site; other site 416269004783 16S rRNA interaction site [nucleotide binding]; other site 416269004784 streptomycin interaction site [chemical binding]; other site 416269004785 23S rRNA interaction site [nucleotide binding]; other site 416269004786 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 416269004787 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 416269004788 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 416269004789 putative active site [active] 416269004790 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 416269004791 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 416269004792 putative active site [active] 416269004793 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 416269004794 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 416269004795 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 416269004796 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 416269004797 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 416269004798 ATP-grasp domain; Region: ATP-grasp_4; cl17255 416269004799 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 416269004800 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416269004801 DNA binding residues [nucleotide binding] 416269004802 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 416269004803 aromatic amino acid transport protein; Region: araaP; TIGR00837 416269004804 Protein of unknown function (DUF406); Region: DUF406; pfam04175 416269004805 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 416269004806 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416269004807 active site 416269004808 catalytic tetrad [active] 416269004809 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 416269004810 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416269004811 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 416269004812 acyl-activating enzyme (AAE) consensus motif; other site 416269004813 putative AMP binding site [chemical binding]; other site 416269004814 putative active site [active] 416269004815 putative CoA binding site [chemical binding]; other site 416269004816 malate:quinone oxidoreductase; Validated; Region: PRK05257 416269004817 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 416269004818 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 416269004819 Predicted membrane protein [Function unknown]; Region: COG4125 416269004820 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 416269004821 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416269004822 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 416269004823 TM-ABC transporter signature motif; other site 416269004824 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416269004825 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 416269004826 Walker A/P-loop; other site 416269004827 ATP binding site [chemical binding]; other site 416269004828 Q-loop/lid; other site 416269004829 ABC transporter signature motif; other site 416269004830 Walker B; other site 416269004831 D-loop; other site 416269004832 H-loop/switch region; other site 416269004833 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416269004834 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 416269004835 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 416269004836 ligand binding site [chemical binding]; other site 416269004837 calcium binding site [ion binding]; other site 416269004838 outer membrane protein A; Reviewed; Region: PRK10808 416269004839 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 416269004840 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416269004841 ligand binding site [chemical binding]; other site 416269004842 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 416269004843 FAD binding domain; Region: FAD_binding_4; pfam01565 416269004844 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 416269004845 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 416269004846 CoenzymeA binding site [chemical binding]; other site 416269004847 subunit interaction site [polypeptide binding]; other site 416269004848 PHB binding site; other site 416269004849 membrane protein insertase; Provisional; Region: PRK01318 416269004850 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 416269004851 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 416269004852 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 416269004853 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 416269004854 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 416269004855 4Fe-4S binding domain; Region: Fer4_5; pfam12801 416269004856 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 416269004857 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 416269004858 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 416269004859 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 416269004860 [4Fe-4S] binding site [ion binding]; other site 416269004861 molybdopterin cofactor binding site; other site 416269004862 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 416269004863 molybdopterin cofactor binding site; other site 416269004864 NapD protein; Region: NapD; pfam03927 416269004865 ferredoxin-type protein; Provisional; Region: PRK10194 416269004866 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 416269004867 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 416269004868 putative transposase OrfB; Reviewed; Region: PHA02517 416269004869 HTH-like domain; Region: HTH_21; pfam13276 416269004870 Integrase core domain; Region: rve; pfam00665 416269004871 Integrase core domain; Region: rve_2; pfam13333 416269004872 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416269004873 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269004874 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269004875 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 416269004876 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 416269004877 homodimer interface [polypeptide binding]; other site 416269004878 oligonucleotide binding site [chemical binding]; other site 416269004879 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 416269004880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 416269004881 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 416269004882 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 416269004883 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 416269004884 metal binding site [ion binding]; metal-binding site 416269004885 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269004886 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 416269004887 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 416269004888 HlyD family secretion protein; Region: HlyD_3; pfam13437 416269004889 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 416269004890 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 416269004891 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416269004892 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 416269004893 Walker A/P-loop; other site 416269004894 ATP binding site [chemical binding]; other site 416269004895 Q-loop/lid; other site 416269004896 ABC transporter signature motif; other site 416269004897 Walker B; other site 416269004898 D-loop; other site 416269004899 H-loop/switch region; other site 416269004900 RTX N-terminal domain; Region: RTX; pfam02382 416269004901 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 416269004902 RTX C-terminal domain; Region: RTX_C; pfam08339 416269004903 RTX toxin acyltransferase family; Region: HlyC; pfam02794 416269004904 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 416269004905 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 416269004906 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 416269004907 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 416269004908 dimer interface [polypeptide binding]; other site 416269004909 conserved gate region; other site 416269004910 putative PBP binding loops; other site 416269004911 ABC-ATPase subunit interface; other site 416269004912 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 416269004913 dimer interface [polypeptide binding]; other site 416269004914 conserved gate region; other site 416269004915 putative PBP binding loops; other site 416269004916 ABC-ATPase subunit interface; other site 416269004917 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 416269004918 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 416269004919 Walker A/P-loop; other site 416269004920 ATP binding site [chemical binding]; other site 416269004921 Q-loop/lid; other site 416269004922 ABC transporter signature motif; other site 416269004923 Walker B; other site 416269004924 D-loop; other site 416269004925 H-loop/switch region; other site 416269004926 TOBE domain; Region: TOBE_2; pfam08402 416269004927 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 416269004928 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416269004929 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416269004930 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416269004931 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 416269004932 AMP binding site [chemical binding]; other site 416269004933 metal binding site [ion binding]; metal-binding site 416269004934 active site 416269004935 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269004936 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 416269004937 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 416269004938 ligand binding site [chemical binding]; other site 416269004939 NAD binding site [chemical binding]; other site 416269004940 tetramer interface [polypeptide binding]; other site 416269004941 catalytic site [active] 416269004942 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 416269004943 L-serine binding site [chemical binding]; other site 416269004944 ACT domain interface; other site 416269004945 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 416269004946 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416269004947 active site 416269004948 dimer interface [polypeptide binding]; other site 416269004949 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 416269004950 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 416269004951 active site 416269004952 substrate binding site [chemical binding]; other site 416269004953 metal binding site [ion binding]; metal-binding site 416269004954 threonine dehydratase; Reviewed; Region: PRK09224 416269004955 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 416269004956 tetramer interface [polypeptide binding]; other site 416269004957 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269004958 catalytic residue [active] 416269004959 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 416269004960 putative Ile/Val binding site [chemical binding]; other site 416269004961 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 416269004962 putative Ile/Val binding site [chemical binding]; other site 416269004963 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 416269004964 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 416269004965 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 416269004966 amphipathic channel; other site 416269004967 Asn-Pro-Ala signature motifs; other site 416269004968 Protein of unknown function (DUF541); Region: SIMPL; cl01077 416269004969 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 416269004970 homodimer interaction site [polypeptide binding]; other site 416269004971 cofactor binding site; other site 416269004972 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 416269004973 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 416269004974 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 416269004975 UbiA prenyltransferase family; Region: UbiA; pfam01040 416269004976 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 416269004977 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 416269004978 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 416269004979 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 416269004980 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 416269004981 Walker A/P-loop; other site 416269004982 ATP binding site [chemical binding]; other site 416269004983 Q-loop/lid; other site 416269004984 ABC transporter signature motif; other site 416269004985 Walker B; other site 416269004986 D-loop; other site 416269004987 H-loop/switch region; other site 416269004988 Acyltransferase family; Region: Acyl_transf_3; pfam01757 416269004989 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 416269004990 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416269004991 UDP-galactopyranose mutase; Region: GLF; pfam03275 416269004992 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 416269004993 metal binding triad [ion binding]; metal-binding site 416269004994 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 416269004995 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 416269004996 Probable Catalytic site; other site 416269004997 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 416269004998 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 416269004999 Bacterial sugar transferase; Region: Bac_transf; pfam02397 416269005000 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 416269005001 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 416269005002 NAD binding site [chemical binding]; other site 416269005003 substrate binding site [chemical binding]; other site 416269005004 homodimer interface [polypeptide binding]; other site 416269005005 active site 416269005006 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 416269005007 DNA primase; Validated; Region: dnaG; PRK05667 416269005008 CHC2 zinc finger; Region: zf-CHC2; pfam01807 416269005009 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 416269005010 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 416269005011 active site 416269005012 metal binding site [ion binding]; metal-binding site 416269005013 interdomain interaction site; other site 416269005014 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 416269005015 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 416269005016 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 416269005017 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 416269005018 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 416269005019 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 416269005020 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416269005021 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 416269005022 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 416269005023 DNA binding residues [nucleotide binding] 416269005024 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 416269005025 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 416269005026 active site 416269005027 HIGH motif; other site 416269005028 dimer interface [polypeptide binding]; other site 416269005029 KMSKS motif; other site 416269005030 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 416269005031 RNA binding surface [nucleotide binding]; other site 416269005032 exoribonuclease R; Provisional; Region: PRK11642 416269005033 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 416269005034 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 416269005035 RNB domain; Region: RNB; pfam00773 416269005036 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 416269005037 RNA binding site [nucleotide binding]; other site 416269005038 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 416269005039 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416269005040 catalytic residues [active] 416269005041 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 416269005042 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416269005043 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 416269005044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416269005045 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 416269005046 dimerization interface [polypeptide binding]; other site 416269005047 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 416269005048 catalytic triad [active] 416269005049 dimer interface [polypeptide binding]; other site 416269005050 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 416269005051 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269005052 MULE transposase domain; Region: MULE; pfam10551 416269005053 pyridoxamine kinase; Validated; Region: PRK05756 416269005054 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 416269005055 dimer interface [polypeptide binding]; other site 416269005056 pyridoxal binding site [chemical binding]; other site 416269005057 ATP binding site [chemical binding]; other site 416269005058 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 416269005059 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 416269005060 FtsI repressor; Provisional; Region: PRK10883 416269005061 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 416269005062 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 416269005063 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 416269005064 putative acyl-acceptor binding pocket; other site 416269005065 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 416269005066 dimer interface [polypeptide binding]; other site 416269005067 catalytic triad [active] 416269005068 peroxidatic and resolving cysteines [active] 416269005069 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 416269005070 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 416269005071 trmE is a tRNA modification GTPase; Region: trmE; cd04164 416269005072 G1 box; other site 416269005073 GTP/Mg2+ binding site [chemical binding]; other site 416269005074 Switch I region; other site 416269005075 G2 box; other site 416269005076 Switch II region; other site 416269005077 G3 box; other site 416269005078 G4 box; other site 416269005079 G5 box; other site 416269005080 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 416269005081 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 416269005082 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 416269005083 Pirin-related protein [General function prediction only]; Region: COG1741 416269005084 Pirin; Region: Pirin; pfam02678 416269005085 Ferritin-like domain; Region: Ferritin; pfam00210 416269005086 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 416269005087 dimerization interface [polypeptide binding]; other site 416269005088 DPS ferroxidase diiron center [ion binding]; other site 416269005089 ion pore; other site 416269005090 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 416269005091 non-specific DNA binding site [nucleotide binding]; other site 416269005092 salt bridge; other site 416269005093 sequence-specific DNA binding site [nucleotide binding]; other site 416269005094 Patatin-like phospholipase; Region: Patatin; pfam01734 416269005095 active site 416269005096 nucleophile elbow; other site 416269005097 TIGR01666 family membrane protein; Region: YCCS 416269005098 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 416269005099 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 416269005100 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 416269005101 active site 416269005102 dimer interfaces [polypeptide binding]; other site 416269005103 catalytic residues [active] 416269005104 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 416269005105 threonine synthase; Validated; Region: PRK09225 416269005106 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416269005107 catalytic residue [active] 416269005108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416269005109 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269005110 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269005111 putative transposase OrfB; Reviewed; Region: PHA02517 416269005112 HTH-like domain; Region: HTH_21; pfam13276 416269005113 Integrase core domain; Region: rve; pfam00665 416269005114 Integrase core domain; Region: rve_2; pfam13333 416269005115 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 416269005116 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 416269005117 HIGH motif; other site 416269005118 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 416269005119 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 416269005120 active site 416269005121 KMSKS motif; other site 416269005122 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 416269005123 tRNA binding surface [nucleotide binding]; other site 416269005124 anticodon binding site; other site 416269005125 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 416269005126 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416269005127 Coenzyme A binding pocket [chemical binding]; other site 416269005128 DNA polymerase III subunit chi; Validated; Region: PRK05728 416269005129 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 416269005130 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416269005131 trigger factor; Provisional; Region: tig; PRK01490 416269005132 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 416269005133 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 416269005134 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 416269005135 active site residue [active] 416269005136 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 416269005137 SecA binding site; other site 416269005138 Preprotein binding site; other site 416269005139 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 416269005140 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 416269005141 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 416269005142 serine acetyltransferase; Provisional; Region: cysE; PRK11132 416269005143 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 416269005144 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 416269005145 trimer interface [polypeptide binding]; other site 416269005146 active site 416269005147 substrate binding site [chemical binding]; other site 416269005148 CoA binding site [chemical binding]; other site 416269005149 elongation factor Tu; Reviewed; Region: PRK00049 416269005150 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 416269005151 G1 box; other site 416269005152 GEF interaction site [polypeptide binding]; other site 416269005153 GTP/Mg2+ binding site [chemical binding]; other site 416269005154 Switch I region; other site 416269005155 G2 box; other site 416269005156 G3 box; other site 416269005157 Switch II region; other site 416269005158 G4 box; other site 416269005159 G5 box; other site 416269005160 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 416269005161 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 416269005162 Antibiotic Binding Site [chemical binding]; other site 416269005163 pantothenate kinase; Provisional; Region: PRK05439 416269005164 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 416269005165 ATP-binding site [chemical binding]; other site 416269005166 CoA-binding site [chemical binding]; other site 416269005167 Mg2+-binding site [ion binding]; other site 416269005168 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 416269005169 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 416269005170 catalytic residues [active] 416269005171 central insert; other site 416269005172 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 416269005173 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 416269005174 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 416269005175 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 416269005176 MPT binding site; other site 416269005177 trimer interface [polypeptide binding]; other site 416269005178 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 416269005179 Nitrogen regulatory protein P-II; Region: P-II; smart00938 416269005180 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 416269005181 lipoprotein signal peptidase; Provisional; Region: PRK14787 416269005182 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 416269005183 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 416269005184 Uncharacterized conserved protein [Function unknown]; Region: COG2938 416269005185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416269005186 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416269005187 NAD(P) binding site [chemical binding]; other site 416269005188 active site 416269005189 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 416269005190 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 416269005191 FeS/SAM binding site; other site 416269005192 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 416269005193 glutathionine S-transferase; Provisional; Region: PRK10542 416269005194 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 416269005195 C-terminal domain interface [polypeptide binding]; other site 416269005196 GSH binding site (G-site) [chemical binding]; other site 416269005197 dimer interface [polypeptide binding]; other site 416269005198 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 416269005199 dimer interface [polypeptide binding]; other site 416269005200 N-terminal domain interface [polypeptide binding]; other site 416269005201 substrate binding pocket (H-site) [chemical binding]; other site 416269005202 diaminopimelate decarboxylase; Region: lysA; TIGR01048 416269005203 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 416269005204 active site 416269005205 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416269005206 substrate binding site [chemical binding]; other site 416269005207 catalytic residues [active] 416269005208 dimer interface [polypeptide binding]; other site 416269005209 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 416269005210 Iron-sulfur protein interface; other site 416269005211 proximal quinone binding site [chemical binding]; other site 416269005212 C-subunit interface; other site 416269005213 distal quinone binding site; other site 416269005214 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 416269005215 D-subunit interface [polypeptide binding]; other site 416269005216 Iron-sulfur protein interface; other site 416269005217 proximal quinone binding site [chemical binding]; other site 416269005218 distal quinone binding site [chemical binding]; other site 416269005219 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 416269005220 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 416269005221 catalytic loop [active] 416269005222 iron binding site [ion binding]; other site 416269005223 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 416269005224 L-aspartate oxidase; Provisional; Region: PRK06175 416269005225 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 416269005226 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 416269005227 poxB regulator PoxA; Provisional; Region: PRK09350 416269005228 motif 1; other site 416269005229 dimer interface [polypeptide binding]; other site 416269005230 active site 416269005231 motif 2; other site 416269005232 motif 3; other site 416269005233 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 416269005234 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 416269005235 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 416269005236 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 416269005237 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 416269005238 chromosome condensation membrane protein; Provisional; Region: PRK14196 416269005239 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416269005240 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 416269005241 putative substrate translocation pore; other site 416269005242 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 416269005243 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 416269005244 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 416269005245 putative active site [active] 416269005246 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 416269005247 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 416269005248 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 416269005249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 416269005250 protease TldD; Provisional; Region: tldD; PRK10735 416269005251 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 416269005252 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 416269005253 Ligand Binding Site [chemical binding]; other site 416269005254 TilS substrate binding domain; Region: TilS; pfam09179 416269005255 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 416269005256 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 416269005257 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 416269005258 active site 416269005259 Int/Topo IB signature motif; other site 416269005260 16S ribosomal RNA; contains internal duplication 416269005261 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 416269005262 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 416269005263 putative common antigen polymerase; Provisional; Region: PRK02975 416269005264 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 416269005265 hybrid cluster protein; Provisional; Region: PRK05290 416269005266 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 416269005267 ACS interaction site; other site 416269005268 CODH interaction site; other site 416269005269 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 416269005270 CODH interaction site; other site 416269005271 metal cluster binding site [ion binding]; other site 416269005272 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 416269005273 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 416269005274 FAD binding pocket [chemical binding]; other site 416269005275 FAD binding motif [chemical binding]; other site 416269005276 phosphate binding motif [ion binding]; other site 416269005277 beta-alpha-beta structure motif; other site 416269005278 NAD binding pocket [chemical binding]; other site 416269005279 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 416269005280 catalytic loop [active] 416269005281 iron binding site [ion binding]; other site 416269005282 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 416269005283 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 416269005284 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 416269005285 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 416269005286 inhibitor-cofactor binding pocket; inhibition site 416269005287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269005288 catalytic residue [active] 416269005289 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416269005290 Coenzyme A binding pocket [chemical binding]; other site 416269005291 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 416269005292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416269005293 NAD(P) binding site [chemical binding]; other site 416269005294 active site 416269005295 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 416269005296 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 416269005297 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 416269005298 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 416269005299 homodimer interface [polypeptide binding]; other site 416269005300 active site 416269005301 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 416269005302 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 416269005303 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 416269005304 Mg++ binding site [ion binding]; other site 416269005305 putative catalytic motif [active] 416269005306 substrate binding site [chemical binding]; other site 416269005307 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 416269005308 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 416269005309 inhibitor-cofactor binding pocket; inhibition site 416269005310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269005311 catalytic residue [active] 416269005312 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 416269005313 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416269005314 putative substrate translocation pore; other site 416269005315 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 416269005316 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 416269005317 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 416269005318 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 416269005319 TrkA-N domain; Region: TrkA_N; pfam02254 416269005320 TrkA-C domain; Region: TrkA_C; pfam02080 416269005321 TrkA-N domain; Region: TrkA_N; pfam02254 416269005322 TrkA-C domain; Region: TrkA_C; pfam02080 416269005323 16S rRNA methyltransferase B; Provisional; Region: PRK10901 416269005324 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 416269005325 putative RNA binding site [nucleotide binding]; other site 416269005326 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 416269005327 S-adenosylmethionine binding site [chemical binding]; other site 416269005328 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 416269005329 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 416269005330 G1 box; other site 416269005331 putative GEF interaction site [polypeptide binding]; other site 416269005332 GTP/Mg2+ binding site [chemical binding]; other site 416269005333 Switch I region; other site 416269005334 G2 box; other site 416269005335 G3 box; other site 416269005336 Switch II region; other site 416269005337 G4 box; other site 416269005338 G5 box; other site 416269005339 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 416269005340 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 416269005341 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 416269005342 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 416269005343 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 416269005344 selenocysteine synthase; Provisional; Region: PRK04311 416269005345 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 416269005346 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 416269005347 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416269005348 catalytic residue [active] 416269005349 FMN-binding protein MioC; Provisional; Region: PRK09004 416269005350 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 416269005351 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 416269005352 putative N- and C-terminal domain interface [polypeptide binding]; other site 416269005353 putative active site [active] 416269005354 MgATP binding site [chemical binding]; other site 416269005355 catalytic site [active] 416269005356 metal binding site [ion binding]; metal-binding site 416269005357 putative xylulose binding site [chemical binding]; other site 416269005358 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 416269005359 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 416269005360 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 416269005361 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 416269005362 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 416269005363 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 416269005364 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 416269005365 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 416269005366 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 416269005367 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 416269005368 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 416269005369 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 416269005370 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 416269005371 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 416269005372 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416269005373 KpsF/GutQ family protein; Region: kpsF; TIGR00393 416269005374 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 416269005375 putative active site [active] 416269005376 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 416269005377 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 416269005378 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 416269005379 Ligand binding site; other site 416269005380 oligomer interface; other site 416269005381 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 416269005382 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 416269005383 Protein of unknown function (DUF563); Region: DUF563; pfam04577 416269005384 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 416269005385 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416269005386 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 416269005387 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 416269005388 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 416269005389 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 416269005390 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 416269005391 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 416269005392 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 416269005393 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 416269005394 Walker A/P-loop; other site 416269005395 ATP binding site [chemical binding]; other site 416269005396 Q-loop/lid; other site 416269005397 ABC transporter signature motif; other site 416269005398 Walker B; other site 416269005399 D-loop; other site 416269005400 H-loop/switch region; other site 416269005401 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 416269005402 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269005403 Walker A/P-loop; other site 416269005404 ATP binding site [chemical binding]; other site 416269005405 Q-loop/lid; other site 416269005406 ABC transporter signature motif; other site 416269005407 Walker B; other site 416269005408 D-loop; other site 416269005409 H-loop/switch region; other site 416269005410 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269005411 Walker A/P-loop; other site 416269005412 ATP binding site [chemical binding]; other site 416269005413 Q-loop/lid; other site 416269005414 ABC transporter signature motif; other site 416269005415 Walker B; other site 416269005416 D-loop; other site 416269005417 H-loop/switch region; other site 416269005418 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 416269005419 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 416269005420 putative active site [active] 416269005421 substrate binding site [chemical binding]; other site 416269005422 putative cosubstrate binding site; other site 416269005423 catalytic site [active] 416269005424 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 416269005425 substrate binding site [chemical binding]; other site 416269005426 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 416269005427 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 416269005428 hypothetical protein; Provisional; Region: PRK11568 416269005429 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 416269005430 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 416269005431 Cation transport protein; Region: TrkH; cl17365 416269005432 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 416269005433 Flavodoxin domain; Region: Flavodoxin_5; cl17428 416269005434 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 416269005435 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 416269005436 lipoyl synthase; Provisional; Region: PRK05481 416269005437 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 416269005438 FeS/SAM binding site; other site 416269005439 lipoate-protein ligase B; Provisional; Region: PRK14342 416269005440 hypothetical protein; Provisional; Region: PRK04998 416269005441 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 416269005442 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 416269005443 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 416269005444 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 416269005445 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 416269005446 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 416269005447 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 416269005448 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 416269005449 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 416269005450 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 416269005451 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 416269005452 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 416269005453 MutS domain I; Region: MutS_I; pfam01624 416269005454 MutS domain II; Region: MutS_II; pfam05188 416269005455 MutS domain III; Region: MutS_III; pfam05192 416269005456 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 416269005457 Walker A/P-loop; other site 416269005458 ATP binding site [chemical binding]; other site 416269005459 Q-loop/lid; other site 416269005460 ABC transporter signature motif; other site 416269005461 Walker B; other site 416269005462 D-loop; other site 416269005463 H-loop/switch region; other site 416269005464 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416269005465 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 416269005466 Walker A/P-loop; other site 416269005467 ATP binding site [chemical binding]; other site 416269005468 Q-loop/lid; other site 416269005469 ABC transporter signature motif; other site 416269005470 Walker B; other site 416269005471 D-loop; other site 416269005472 H-loop/switch region; other site 416269005473 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416269005474 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 416269005475 dimer interface [polypeptide binding]; other site 416269005476 conserved gate region; other site 416269005477 putative PBP binding loops; other site 416269005478 ABC-ATPase subunit interface; other site 416269005479 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 416269005480 Hemerythrin-like domain; Region: Hr-like; cd12108 416269005481 Fe binding site [ion binding]; other site 416269005482 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 416269005483 conserved hypothetical protein; Region: TIGR00743 416269005484 Protein of unknown function (DUF533); Region: DUF533; pfam04391 416269005485 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 416269005486 putative metal binding site [ion binding]; other site 416269005487 Uncharacterized conserved protein [Function unknown]; Region: COG1359 416269005488 UreD urease accessory protein; Region: UreD; cl00530 416269005489 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 416269005490 G1 box; other site 416269005491 GTP/Mg2+ binding site [chemical binding]; other site 416269005492 G2 box; other site 416269005493 Switch I region; other site 416269005494 G3 box; other site 416269005495 Switch II region; other site 416269005496 G4 box; other site 416269005497 G5 box; other site 416269005498 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 416269005499 UreF; Region: UreF; pfam01730 416269005500 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 416269005501 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 416269005502 dimer interface [polypeptide binding]; other site 416269005503 catalytic residues [active] 416269005504 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 416269005505 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 416269005506 putative C-terminal domain interface [polypeptide binding]; other site 416269005507 putative GSH binding site (G-site) [chemical binding]; other site 416269005508 putative dimer interface [polypeptide binding]; other site 416269005509 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 416269005510 N-terminal domain interface [polypeptide binding]; other site 416269005511 dimer interface [polypeptide binding]; other site 416269005512 substrate binding pocket (H-site) [chemical binding]; other site 416269005513 urease subunit alpha; Reviewed; Region: ureC; PRK13207 416269005514 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 416269005515 subunit interactions [polypeptide binding]; other site 416269005516 active site 416269005517 flap region; other site 416269005518 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 416269005519 gamma-beta subunit interface [polypeptide binding]; other site 416269005520 alpha-beta subunit interface [polypeptide binding]; other site 416269005521 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 416269005522 alpha-gamma subunit interface [polypeptide binding]; other site 416269005523 beta-gamma subunit interface [polypeptide binding]; other site 416269005524 Urea transporter; Region: UT; pfam03253 416269005525 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 416269005526 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 416269005527 Walker A/P-loop; other site 416269005528 ATP binding site [chemical binding]; other site 416269005529 Q-loop/lid; other site 416269005530 ABC transporter signature motif; other site 416269005531 Walker B; other site 416269005532 D-loop; other site 416269005533 H-loop/switch region; other site 416269005534 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 416269005535 cobalt transport protein CbiM; Validated; Region: PRK06265 416269005536 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 416269005537 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 416269005538 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416269005539 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 416269005540 dimerization interface [polypeptide binding]; other site 416269005541 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 416269005542 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 416269005543 transmembrane helices; other site 416269005544 TrkA-C domain; Region: TrkA_C; pfam02080 416269005545 TrkA-C domain; Region: TrkA_C; pfam02080 416269005546 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 416269005547 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 416269005548 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 416269005549 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 416269005550 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 416269005551 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 416269005552 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 416269005553 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 416269005554 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 416269005555 active site 416269005556 P-loop; other site 416269005557 phosphorylation site [posttranslational modification] 416269005558 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 416269005559 active site 416269005560 phosphorylation site [posttranslational modification] 416269005561 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 416269005562 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 416269005563 glutaminase active site [active] 416269005564 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 416269005565 dimer interface [polypeptide binding]; other site 416269005566 active site 416269005567 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 416269005568 dimer interface [polypeptide binding]; other site 416269005569 active site 416269005570 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 416269005571 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 416269005572 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 416269005573 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 416269005574 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416269005575 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 416269005576 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 416269005577 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 416269005578 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 416269005579 FeS/SAM binding site; other site 416269005580 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 416269005581 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 416269005582 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 416269005583 catalytic residues [active] 416269005584 hinge region; other site 416269005585 alpha helical domain; other site 416269005586 hypothetical protein; Provisional; Region: PRK02119 416269005587 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 416269005588 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 416269005589 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 416269005590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 416269005591 YheO-like PAS domain; Region: PAS_6; pfam08348 416269005592 HTH domain; Region: HTH_22; pfam13309 416269005593 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 416269005594 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 416269005595 DsrH like protein; Region: DsrH; cl17347 416269005596 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 416269005597 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 416269005598 gamma subunit interface [polypeptide binding]; other site 416269005599 epsilon subunit interface [polypeptide binding]; other site 416269005600 LBP interface [polypeptide binding]; other site 416269005601 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 416269005602 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 416269005603 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 416269005604 alpha subunit interaction interface [polypeptide binding]; other site 416269005605 Walker A motif; other site 416269005606 ATP binding site [chemical binding]; other site 416269005607 Walker B motif; other site 416269005608 inhibitor binding site; inhibition site 416269005609 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 416269005610 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 416269005611 core domain interface [polypeptide binding]; other site 416269005612 delta subunit interface [polypeptide binding]; other site 416269005613 epsilon subunit interface [polypeptide binding]; other site 416269005614 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 416269005615 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 416269005616 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 416269005617 beta subunit interaction interface [polypeptide binding]; other site 416269005618 Walker A motif; other site 416269005619 ATP binding site [chemical binding]; other site 416269005620 Walker B motif; other site 416269005621 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 416269005622 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 416269005623 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 416269005624 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 416269005625 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 416269005626 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 416269005627 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 416269005628 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 416269005629 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 416269005630 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 416269005631 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 416269005632 S-adenosylmethionine binding site [chemical binding]; other site 416269005633 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 416269005634 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 416269005635 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 416269005636 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 416269005637 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 416269005638 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416269005639 active site 416269005640 motif I; other site 416269005641 motif II; other site 416269005642 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 416269005643 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416269005644 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 416269005645 substrate binding pocket [chemical binding]; other site 416269005646 membrane-bound complex binding site; other site 416269005647 hinge residues; other site 416269005648 hypothetical protein; Provisional; Region: PRK01752 416269005649 SEC-C motif; Region: SEC-C; pfam02810 416269005650 SEC-C motif; Region: SEC-C; pfam02810 416269005651 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 416269005652 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 416269005653 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 416269005654 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 416269005655 active site 416269005656 active pocket/dimerization site; other site 416269005657 phosphorylation site [posttranslational modification] 416269005658 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 416269005659 active site 416269005660 phosphorylation site [posttranslational modification] 416269005661 putative transposase OrfB; Reviewed; Region: PHA02517 416269005662 HTH-like domain; Region: HTH_21; pfam13276 416269005663 Integrase core domain; Region: rve; pfam00665 416269005664 Integrase core domain; Region: rve_2; pfam13333 416269005665 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416269005666 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269005667 Helix-turn-helix domain; Region: HTH_28; pfam13518 416269005668 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 416269005669 fructuronate transporter; Provisional; Region: PRK10034; cl15264 416269005670 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 416269005671 Shikimate kinase; Region: SKI; pfam01202 416269005672 ATP-binding site [chemical binding]; other site 416269005673 Gluconate-6-phosphate binding site [chemical binding]; other site 416269005674 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 416269005675 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416269005676 DNA binding site [nucleotide binding] 416269005677 domain linker motif; other site 416269005678 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 416269005679 putative ligand binding site [chemical binding]; other site 416269005680 putative dimerization interface [polypeptide binding]; other site 416269005681 transcriptional repressor RbsR; Provisional; Region: PRK10423 416269005682 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416269005683 DNA binding site [nucleotide binding] 416269005684 domain linker motif; other site 416269005685 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 416269005686 D-ribose pyranase; Provisional; Region: PRK11797 416269005687 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 416269005688 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416269005689 Walker A/P-loop; other site 416269005690 ATP binding site [chemical binding]; other site 416269005691 Q-loop/lid; other site 416269005692 ABC transporter signature motif; other site 416269005693 Walker B; other site 416269005694 D-loop; other site 416269005695 H-loop/switch region; other site 416269005696 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416269005697 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416269005698 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 416269005699 TM-ABC transporter signature motif; other site 416269005700 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 416269005701 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 416269005702 ligand binding site [chemical binding]; other site 416269005703 dimerization interface [polypeptide binding]; other site 416269005704 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416269005705 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 416269005706 substrate binding site [chemical binding]; other site 416269005707 dimer interface [polypeptide binding]; other site 416269005708 ATP binding site [chemical binding]; other site 416269005709 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 416269005710 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 416269005711 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 416269005712 putative [Fe4-S4] binding site [ion binding]; other site 416269005713 putative molybdopterin cofactor binding site [chemical binding]; other site 416269005714 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 416269005715 putative molybdopterin cofactor binding site; other site 416269005716 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 416269005717 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 416269005718 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 416269005719 ferredoxin-type protein NapF; Region: napF; TIGR00402 416269005720 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 416269005721 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 416269005722 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 416269005723 non-specific DNA binding site [nucleotide binding]; other site 416269005724 salt bridge; other site 416269005725 sequence-specific DNA binding site [nucleotide binding]; other site 416269005726 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 416269005727 HipA-like N-terminal domain; Region: HipA_N; pfam07805 416269005728 HipA-like C-terminal domain; Region: HipA_C; pfam07804 416269005729 AIPR protein; Region: AIPR; pfam10592 416269005730 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 416269005731 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 416269005732 dimerization interface [polypeptide binding]; other site 416269005733 ATP binding site [chemical binding]; other site 416269005734 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 416269005735 dimerization interface [polypeptide binding]; other site 416269005736 ATP binding site [chemical binding]; other site 416269005737 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 416269005738 putative active site [active] 416269005739 catalytic triad [active] 416269005740 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 416269005741 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416269005742 DNA-binding site [nucleotide binding]; DNA binding site 416269005743 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 416269005744 L-fucose isomerase; Provisional; Region: fucI; PRK10991 416269005745 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 416269005746 hexamer (dimer of trimers) interface [polypeptide binding]; other site 416269005747 trimer interface [polypeptide binding]; other site 416269005748 substrate binding site [chemical binding]; other site 416269005749 Mn binding site [ion binding]; other site 416269005750 L-fuculokinase; Provisional; Region: PRK10331 416269005751 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 416269005752 nucleotide binding site [chemical binding]; other site 416269005753 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 416269005754 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 416269005755 intersubunit interface [polypeptide binding]; other site 416269005756 active site 416269005757 Zn2+ binding site [ion binding]; other site 416269005758 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 416269005759 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 416269005760 putative substrate translocation pore; other site 416269005761 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 416269005762 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 416269005763 dimer interface [polypeptide binding]; other site 416269005764 active site 416269005765 metal binding site [ion binding]; metal-binding site 416269005766 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 416269005767 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416269005768 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 416269005769 dimer interface [polypeptide binding]; other site 416269005770 conserved gate region; other site 416269005771 putative PBP binding loops; other site 416269005772 ABC-ATPase subunit interface; other site 416269005773 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 416269005774 dimer interface [polypeptide binding]; other site 416269005775 conserved gate region; other site 416269005776 putative PBP binding loops; other site 416269005777 ABC-ATPase subunit interface; other site 416269005778 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416269005779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416269005780 Walker A/P-loop; other site 416269005781 ATP binding site [chemical binding]; other site 416269005782 Q-loop/lid; other site 416269005783 ABC transporter signature motif; other site 416269005784 Walker B; other site 416269005785 D-loop; other site 416269005786 H-loop/switch region; other site 416269005787 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 416269005788 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 416269005789 substrate binding pocket [chemical binding]; other site 416269005790 membrane-bound complex binding site; other site 416269005791 hinge residues; other site 416269005792 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 416269005793 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 416269005794 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 416269005795 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 416269005796 active site 416269005797 dimer interface [polypeptide binding]; other site 416269005798 magnesium binding site [ion binding]; other site 416269005799 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 416269005800 active site 416269005801 phosphorylation site [posttranslational modification] 416269005802 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 416269005803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 416269005804 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 416269005805 active site 416269005806 P-loop; other site 416269005807 phosphorylation site [posttranslational modification] 416269005808 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 416269005809 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 416269005810 transcriptional repressor UlaR; Provisional; Region: PRK13509 416269005811 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 416269005812 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 416269005813 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 416269005814 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 416269005815 AP (apurinic/apyrimidinic) site pocket; other site 416269005816 DNA interaction; other site 416269005817 Metal-binding active site; metal-binding site 416269005818 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 416269005819 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 416269005820 intersubunit interface [polypeptide binding]; other site 416269005821 active site 416269005822 Zn2+ binding site [ion binding]; other site 416269005823 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 416269005824 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 416269005825 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 416269005826 TPR repeat; Region: TPR_11; pfam13414 416269005827 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 416269005828 binding surface 416269005829 TPR motif; other site 416269005830 Protein of unknown function (DUF560); Region: DUF560; pfam04575 416269005831 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 416269005832 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 416269005833 NADP binding site [chemical binding]; other site 416269005834 homopentamer interface [polypeptide binding]; other site 416269005835 substrate binding site [chemical binding]; other site 416269005836 active site 416269005837 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 416269005838 active site 416269005839 catalytic residues [active] 416269005840 metal binding site [ion binding]; metal-binding site 416269005841 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 416269005842 DNA protecting protein DprA; Region: dprA; TIGR00732 416269005843 Predicted membrane protein [Function unknown]; Region: COG1297 416269005844 putative oligopeptide transporter, OPT family; Region: TIGR00733 416269005845 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 416269005846 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 416269005847 active site 416269005848 P-loop; other site 416269005849 phosphorylation site [posttranslational modification] 416269005850 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 416269005851 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 416269005852 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 416269005853 putative homodimer interface [polypeptide binding]; other site 416269005854 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 416269005855 heterodimer interface [polypeptide binding]; other site 416269005856 homodimer interface [polypeptide binding]; other site 416269005857 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 416269005858 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 416269005859 23S rRNA interface [nucleotide binding]; other site 416269005860 L7/L12 interface [polypeptide binding]; other site 416269005861 putative thiostrepton binding site; other site 416269005862 L25 interface [polypeptide binding]; other site 416269005863 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 416269005864 mRNA/rRNA interface [nucleotide binding]; other site 416269005865 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 416269005866 23S rRNA interface [nucleotide binding]; other site 416269005867 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 416269005868 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 416269005869 core dimer interface [polypeptide binding]; other site 416269005870 peripheral dimer interface [polypeptide binding]; other site 416269005871 L10 interface [polypeptide binding]; other site 416269005872 L11 interface [polypeptide binding]; other site 416269005873 putative EF-Tu interaction site [polypeptide binding]; other site 416269005874 putative EF-G interaction site [polypeptide binding]; other site 416269005875 HipA N-terminal domain; Region: Couple_hipA; pfam13657 416269005876 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 416269005877 HipA-like N-terminal domain; Region: HipA_N; pfam07805 416269005878 HipA-like C-terminal domain; Region: HipA_C; pfam07804 416269005879 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269005880 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 416269005881 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 416269005882 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 416269005883 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 416269005884 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 416269005885 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 416269005886 RPB3 interaction site [polypeptide binding]; other site 416269005887 RPB1 interaction site [polypeptide binding]; other site 416269005888 RPB11 interaction site [polypeptide binding]; other site 416269005889 RPB10 interaction site [polypeptide binding]; other site 416269005890 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 416269005891 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 416269005892 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 416269005893 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 416269005894 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 416269005895 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 416269005896 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 416269005897 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 416269005898 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 416269005899 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 416269005900 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 416269005901 DNA binding site [nucleotide binding] 416269005902 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 416269005903 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 416269005904 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 416269005905 oligomeric interface; other site 416269005906 putative active site [active] 416269005907 homodimer interface [polypeptide binding]; other site 416269005908 Protein of unknown function, DUF417; Region: DUF417; cl01162 416269005909 Uncharacterized protein domain (DUF2202); Region: DUF2202; pfam09968 416269005910 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 416269005911 diiron binding motif [ion binding]; other site 416269005912 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 416269005913 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 416269005914 Walker A motif; other site 416269005915 ATP binding site [chemical binding]; other site 416269005916 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 416269005917 Walker B motif; other site 416269005918 arginine finger; other site 416269005919 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 416269005920 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 416269005921 active site 416269005922 HslU subunit interaction site [polypeptide binding]; other site 416269005923 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 416269005924 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 416269005925 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416269005926 putative metal binding site [ion binding]; other site 416269005927 adenine DNA glycosylase; Provisional; Region: PRK10880 416269005928 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 416269005929 minor groove reading motif; other site 416269005930 helix-hairpin-helix signature motif; other site 416269005931 substrate binding pocket [chemical binding]; other site 416269005932 active site 416269005933 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 416269005934 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 416269005935 DNA binding and oxoG recognition site [nucleotide binding] 416269005936 oxidative damage protection protein; Provisional; Region: PRK05408 416269005937 murein transglycosylase C; Provisional; Region: mltC; PRK11671 416269005938 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 416269005939 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 416269005940 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 416269005941 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416269005942 catalytic residue [active] 416269005943 signal recognition particle protein; Provisional; Region: PRK10867 416269005944 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 416269005945 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 416269005946 P loop; other site 416269005947 GTP binding site [chemical binding]; other site 416269005948 Signal peptide binding domain; Region: SRP_SPB; pfam02978 416269005949 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 416269005950 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 416269005951 active site 416269005952 metal binding site [ion binding]; metal-binding site 416269005953 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 416269005954 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 416269005955 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 416269005956 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 416269005957 sequence-specific DNA binding site [nucleotide binding]; other site 416269005958 salt bridge; other site 416269005959 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 416269005960 Mg chelatase-related protein; Region: TIGR00368 416269005961 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 416269005962 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 416269005963 Walker A motif; other site 416269005964 ATP binding site [chemical binding]; other site 416269005965 Walker B motif; other site 416269005966 arginine finger; other site 416269005967 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 416269005968 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 416269005969 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 416269005970 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 416269005971 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 416269005972 dimer interface [polypeptide binding]; other site 416269005973 tetramer interface [polypeptide binding]; other site 416269005974 PYR/PP interface [polypeptide binding]; other site 416269005975 TPP binding site [chemical binding]; other site 416269005976 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 416269005977 TPP-binding site; other site 416269005978 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 416269005979 active site 416269005980 catalytic triad [active] 416269005981 oxyanion hole [active] 416269005982 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 416269005983 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 416269005984 putative active site cavity [active] 416269005985 N-acetylmannosamine kinase; Provisional; Region: PRK05082 416269005986 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416269005987 nucleotide binding site [chemical binding]; other site 416269005988 N-acetylneuraminate lyase; Provisional; Region: PRK04147 416269005989 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 416269005990 inhibitor site; inhibition site 416269005991 active site 416269005992 dimer interface [polypeptide binding]; other site 416269005993 catalytic residue [active] 416269005994 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 416269005995 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 416269005996 active site 416269005997 trimer interface [polypeptide binding]; other site 416269005998 allosteric site; other site 416269005999 active site lid [active] 416269006000 hexamer (dimer of trimers) interface [polypeptide binding]; other site 416269006001 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 416269006002 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 416269006003 active site 416269006004 dimer interface [polypeptide binding]; other site 416269006005 fumarate hydratase; Reviewed; Region: fumC; PRK00485 416269006006 Class II fumarases; Region: Fumarase_classII; cd01362 416269006007 active site 416269006008 tetramer interface [polypeptide binding]; other site 416269006009 TfoX N-terminal domain; Region: TfoX_N; pfam04993 416269006010 TfoX C-terminal domain; Region: TfoX_C; pfam04994 416269006011 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 416269006012 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 416269006013 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 416269006014 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 416269006015 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 416269006016 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 416269006017 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 416269006018 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 416269006019 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 416269006020 protein-rRNA interface [nucleotide binding]; other site 416269006021 putative translocon binding site; other site 416269006022 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 416269006023 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 416269006024 G-X-X-G motif; other site 416269006025 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 416269006026 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 416269006027 23S rRNA interface [nucleotide binding]; other site 416269006028 5S rRNA interface [nucleotide binding]; other site 416269006029 putative antibiotic binding site [chemical binding]; other site 416269006030 L25 interface [polypeptide binding]; other site 416269006031 L27 interface [polypeptide binding]; other site 416269006032 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 416269006033 23S rRNA interface [nucleotide binding]; other site 416269006034 putative translocon interaction site; other site 416269006035 signal recognition particle (SRP54) interaction site; other site 416269006036 L23 interface [polypeptide binding]; other site 416269006037 trigger factor interaction site; other site 416269006038 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 416269006039 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 416269006040 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 416269006041 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 416269006042 RNA binding site [nucleotide binding]; other site 416269006043 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 416269006044 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 416269006045 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 416269006046 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 416269006047 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 416269006048 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 416269006049 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 416269006050 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 416269006051 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 416269006052 23S rRNA interface [nucleotide binding]; other site 416269006053 L21e interface [polypeptide binding]; other site 416269006054 5S rRNA interface [nucleotide binding]; other site 416269006055 L27 interface [polypeptide binding]; other site 416269006056 L5 interface [polypeptide binding]; other site 416269006057 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 416269006058 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 416269006059 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 416269006060 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 416269006061 23S rRNA binding site [nucleotide binding]; other site 416269006062 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 416269006063 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 416269006064 SecY translocase; Region: SecY; pfam00344 416269006065 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 416269006066 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 416269006067 30S ribosomal protein S13; Region: bact_S13; TIGR03631 416269006068 30S ribosomal protein S11; Validated; Region: PRK05309 416269006069 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 416269006070 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 416269006071 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 416269006072 RNA binding surface [nucleotide binding]; other site 416269006073 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 416269006074 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 416269006075 alphaNTD homodimer interface [polypeptide binding]; other site 416269006076 alphaNTD - beta interaction site [polypeptide binding]; other site 416269006077 alphaNTD - beta' interaction site [polypeptide binding]; other site 416269006078 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 416269006079 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 416269006080 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 416269006081 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 416269006082 RimM N-terminal domain; Region: RimM; pfam01782 416269006083 PRC-barrel domain; Region: PRC; pfam05239 416269006084 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 416269006085 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 416269006086 Cupin superfamily protein; Region: Cupin_4; pfam08007 416269006087 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 416269006088 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 416269006089 intersubunit interface [polypeptide binding]; other site 416269006090 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 416269006091 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 416269006092 dimer interface [polypeptide binding]; other site 416269006093 putative PBP binding regions; other site 416269006094 ABC-ATPase subunit interface; other site 416269006095 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 416269006096 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 416269006097 Walker A/P-loop; other site 416269006098 ATP binding site [chemical binding]; other site 416269006099 Q-loop/lid; other site 416269006100 ABC transporter signature motif; other site 416269006101 Walker B; other site 416269006102 D-loop; other site 416269006103 H-loop/switch region; other site 416269006104 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 416269006105 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 416269006106 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 416269006107 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 416269006108 intersubunit interface [polypeptide binding]; other site 416269006109 ATP-grasp domain; Region: ATP-grasp_4; cl17255 416269006110 chaperone protein TorD; Validated; Region: torD; PRK04976 416269006111 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 416269006112 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 416269006113 molybdopterin cofactor binding site [chemical binding]; other site 416269006114 substrate binding site [chemical binding]; other site 416269006115 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 416269006116 molybdopterin cofactor binding site; other site 416269006117 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 416269006118 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 416269006119 dimer interface [polypeptide binding]; other site 416269006120 motif 1; other site 416269006121 active site 416269006122 motif 2; other site 416269006123 motif 3; other site 416269006124 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 416269006125 putative active site [active] 416269006126 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 416269006127 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 416269006128 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 416269006129 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 416269006130 active site 416269006131 Int/Topo IB signature motif; other site 416269006132 Protein of unknown function (DUF454); Region: DUF454; cl01063 416269006133 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 416269006134 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416269006135 active site 416269006136 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416269006137 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 416269006138 putative active site [active] 416269006139 putative metal binding site [ion binding]; other site 416269006140 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 416269006141 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 416269006142 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 416269006143 active site 416269006144 MULE transposase domain; Region: MULE; pfam10551 416269006145 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 416269006146 HlyD family secretion protein; Region: HlyD_3; pfam13437 416269006147 MltA-interacting protein MipA; Region: MipA; cl01504 416269006148 DNA polymerase III subunit delta'; Validated; Region: PRK06871 416269006149 DNA polymerase III subunit delta'; Validated; Region: PRK08485 416269006150 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 416269006151 thymidylate kinase; Validated; Region: tmk; PRK00698 416269006152 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 416269006153 TMP-binding site; other site 416269006154 ATP-binding site [chemical binding]; other site 416269006155 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 416269006156 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 416269006157 dimerization interface [polypeptide binding]; other site 416269006158 acyl carrier protein; Provisional; Region: acpP; PRK00982 416269006159 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 416269006160 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 416269006161 substrate binding site [chemical binding]; other site 416269006162 hexamer interface [polypeptide binding]; other site 416269006163 metal binding site [ion binding]; metal-binding site 416269006164 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 416269006165 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 416269006166 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 416269006167 Transglycosylase; Region: Transgly; pfam00912 416269006168 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 416269006169 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 416269006170 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 416269006171 substrate binding site [chemical binding]; other site 416269006172 oxyanion hole (OAH) forming residues; other site 416269006173 trimer interface [polypeptide binding]; other site 416269006174 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416269006175 Zn2+ binding site [ion binding]; other site 416269006176 Mg2+ binding site [ion binding]; other site 416269006177 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 416269006178 synthetase active site [active] 416269006179 NTP binding site [chemical binding]; other site 416269006180 metal binding site [ion binding]; metal-binding site 416269006181 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 416269006182 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 416269006183 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 416269006184 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 416269006185 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 416269006186 Pathogenicity locus; Region: Cdd1; pfam11731 416269006187 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 416269006188 generic binding surface II; other site 416269006189 ssDNA binding site; other site 416269006190 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 416269006191 ATP binding site [chemical binding]; other site 416269006192 putative Mg++ binding site [ion binding]; other site 416269006193 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 416269006194 nucleotide binding region [chemical binding]; other site 416269006195 ATP-binding site [chemical binding]; other site 416269006196 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 416269006197 oligomeric interface; other site 416269006198 putative active site [active] 416269006199 homodimer interface [polypeptide binding]; other site 416269006200 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 416269006201 prolyl-tRNA synthetase; Provisional; Region: PRK09194 416269006202 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 416269006203 dimer interface [polypeptide binding]; other site 416269006204 motif 1; other site 416269006205 active site 416269006206 motif 2; other site 416269006207 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 416269006208 putative deacylase active site [active] 416269006209 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 416269006210 active site 416269006211 motif 3; other site 416269006212 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 416269006213 anticodon binding site; other site 416269006214 RNA polymerase sigma factor; Provisional; Region: PRK12530 416269006215 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416269006216 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 416269006217 DNA binding residues [nucleotide binding] 416269006218 TMAO/DMSO reductase; Reviewed; Region: PRK05363 416269006219 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 416269006220 Moco binding site; other site 416269006221 metal coordination site [ion binding]; other site 416269006222 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 416269006223 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 416269006224 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416269006225 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 416269006226 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 416269006227 DNA binding residues [nucleotide binding] 416269006228 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 416269006229 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 416269006230 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 416269006231 dimer interface [polypeptide binding]; other site 416269006232 active site 416269006233 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 416269006234 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 416269006235 putative DNA binding site [nucleotide binding]; other site 416269006236 putative Zn2+ binding site [ion binding]; other site 416269006237 AsnC family; Region: AsnC_trans_reg; pfam01037 416269006238 uridine phosphorylase; Provisional; Region: PRK11178 416269006239 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 416269006240 Chorismate lyase; Region: Chor_lyase; cl01230 416269006241 glutamate racemase; Provisional; Region: PRK00865 416269006242 16S ribosomal RNA; contains internal duplication 416269006243 sulfite reductase subunit beta; Provisional; Region: PRK13504 416269006244 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 416269006245 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 416269006246 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 416269006247 Flavodoxin; Region: Flavodoxin_1; pfam00258 416269006248 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 416269006249 FAD binding pocket [chemical binding]; other site 416269006250 FAD binding motif [chemical binding]; other site 416269006251 catalytic residues [active] 416269006252 NAD binding pocket [chemical binding]; other site 416269006253 phosphate binding motif [ion binding]; other site 416269006254 beta-alpha-beta structure motif; other site 416269006255 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 416269006256 G5 box; other site 416269006257 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 416269006258 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 416269006259 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 416269006260 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 416269006261 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 416269006262 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 416269006263 dimer interface [polypeptide binding]; other site 416269006264 conserved gate region; other site 416269006265 putative PBP binding loops; other site 416269006266 ABC-ATPase subunit interface; other site 416269006267 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 416269006268 dimer interface [polypeptide binding]; other site 416269006269 conserved gate region; other site 416269006270 putative PBP binding loops; other site 416269006271 ABC-ATPase subunit interface; other site 416269006272 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 416269006273 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 416269006274 Walker A/P-loop; other site 416269006275 ATP binding site [chemical binding]; other site 416269006276 Q-loop/lid; other site 416269006277 ABC transporter signature motif; other site 416269006278 Walker B; other site 416269006279 D-loop; other site 416269006280 H-loop/switch region; other site 416269006281 TOBE-like domain; Region: TOBE_3; pfam12857 416269006282 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 416269006283 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 416269006284 phosphate binding site [ion binding]; other site 416269006285 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 416269006286 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 416269006287 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 416269006288 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 416269006289 FAD binding domain; Region: FAD_binding_4; pfam01565 416269006290 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 416269006291 outer membrane protein A; Reviewed; Region: PRK10808 416269006292 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 416269006293 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 416269006294 ligand binding site [chemical binding]; other site 416269006295 ketol-acid reductoisomerase; Validated; Region: PRK05225 416269006296 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 416269006297 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 416269006298 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 416269006299 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 416269006300 Paraquat-inducible protein A; Region: PqiA; pfam04403 416269006301 Paraquat-inducible protein A; Region: PqiA; pfam04403 416269006302 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 416269006303 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 416269006304 MerT mercuric transport protein; Region: MerT; cl03578 416269006305 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 416269006306 metal-binding site [ion binding] 416269006307 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 416269006308 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 416269006309 dimer interface [polypeptide binding]; other site 416269006310 active site 416269006311 metal binding site [ion binding]; metal-binding site 416269006312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416269006313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416269006314 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 416269006315 dimerization interface [polypeptide binding]; other site 416269006316 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 416269006317 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 416269006318 trimer interface [polypeptide binding]; other site 416269006319 active site 416269006320 substrate binding site [chemical binding]; other site 416269006321 CoA binding site [chemical binding]; other site 416269006322 Dehydroquinase class II; Region: DHquinase_II; pfam01220 416269006323 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 416269006324 active site 416269006325 trimer interface [polypeptide binding]; other site 416269006326 dimer interface [polypeptide binding]; other site 416269006327 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 416269006328 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 416269006329 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 416269006330 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 416269006331 carboxyltransferase (CT) interaction site; other site 416269006332 biotinylation site [posttranslational modification]; other site 416269006333 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 416269006334 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416269006335 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 416269006336 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 416269006337 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 416269006338 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 416269006339 GTP binding site; other site 416269006340 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 416269006341 Walker A motif; other site 416269006342 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 416269006343 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 416269006344 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 416269006345 catalytic residues [active] 416269006346 hinge region; other site 416269006347 alpha helical domain; other site 416269006348 Sporulation related domain; Region: SPOR; pfam05036 416269006349 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 416269006350 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 416269006351 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 416269006352 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 416269006353 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 416269006354 metal binding site [ion binding]; metal-binding site 416269006355 dimer interface [polypeptide binding]; other site 416269006356 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 416269006357 ArsC family; Region: ArsC; pfam03960 416269006358 putative catalytic residues [active] 416269006359 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 416269006360 dihydropteroate synthase; Region: DHPS; TIGR01496 416269006361 substrate binding pocket [chemical binding]; other site 416269006362 dimer interface [polypeptide binding]; other site 416269006363 inhibitor binding site; inhibition site 416269006364 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 416269006365 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 416269006366 RNA binding surface [nucleotide binding]; other site 416269006367 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 416269006368 active site 416269006369 Conserved TM helix; Region: TM_helix; pfam05552 416269006370 mechanosensitive channel MscS; Provisional; Region: PRK10334 416269006371 Mechanosensitive ion channel; Region: MS_channel; pfam00924 416269006372 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 416269006373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 416269006374 Putative esterase; Region: Esterase; pfam00756 416269006375 protease3; Provisional; Region: PRK15101 416269006376 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 416269006377 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 416269006378 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 416269006379 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 416269006380 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 416269006381 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 416269006382 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 416269006383 active site 1 [active] 416269006384 dimer interface [polypeptide binding]; other site 416269006385 active site 2 [active] 416269006386 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 416269006387 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 416269006388 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 416269006389 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 416269006390 active site 416269006391 dimer interface [polypeptide binding]; other site 416269006392 KMSKS motif; other site 416269006393 phosphoglycolate phosphatase; Provisional; Region: PRK13222 416269006394 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416269006395 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 416269006396 motif II; other site 416269006397 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 416269006398 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 416269006399 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 416269006400 putative active site [active] 416269006401 Ap4A binding site [chemical binding]; other site 416269006402 nudix motif; other site 416269006403 putative metal binding site [ion binding]; other site 416269006404 Peptidase family M48; Region: Peptidase_M48; pfam01435 416269006405 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 416269006406 dimer interface [polypeptide binding]; other site 416269006407 substrate binding site [chemical binding]; other site 416269006408 metal binding sites [ion binding]; metal-binding site 416269006409 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 416269006410 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 416269006411 S-adenosylmethionine binding site [chemical binding]; other site 416269006412 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 416269006413 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 416269006414 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 416269006415 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269006416 chaperone protein DnaJ; Provisional; Region: PRK10767 416269006417 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 416269006418 HSP70 interaction site [polypeptide binding]; other site 416269006419 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 416269006420 substrate binding site [polypeptide binding]; other site 416269006421 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 416269006422 Zn binding sites [ion binding]; other site 416269006423 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 416269006424 dimer interface [polypeptide binding]; other site 416269006425 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 416269006426 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 416269006427 nucleotide binding site [chemical binding]; other site 416269006428 xylulokinase; Provisional; Region: PRK15027 416269006429 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 416269006430 N- and C-terminal domain interface [polypeptide binding]; other site 416269006431 active site 416269006432 MgATP binding site [chemical binding]; other site 416269006433 catalytic site [active] 416269006434 metal binding site [ion binding]; metal-binding site 416269006435 xylulose binding site [chemical binding]; other site 416269006436 homodimer interface [polypeptide binding]; other site 416269006437 xylose isomerase; Provisional; Region: PRK05474 416269006438 xylose isomerase; Region: xylose_isom_A; TIGR02630 416269006439 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 416269006440 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 416269006441 putative ligand binding site [chemical binding]; other site 416269006442 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 416269006443 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416269006444 Walker A/P-loop; other site 416269006445 ATP binding site [chemical binding]; other site 416269006446 Q-loop/lid; other site 416269006447 ABC transporter signature motif; other site 416269006448 Walker B; other site 416269006449 D-loop; other site 416269006450 H-loop/switch region; other site 416269006451 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416269006452 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416269006453 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 416269006454 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416269006455 TM-ABC transporter signature motif; other site 416269006456 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 416269006457 putative dimerization interface [polypeptide binding]; other site 416269006458 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416269006459 putative ligand binding site [chemical binding]; other site 416269006460 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416269006461 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416269006462 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 416269006463 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 416269006464 active site 416269006465 Zn binding site [ion binding]; other site 416269006466 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 416269006467 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 416269006468 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 416269006469 Na binding site [ion binding]; other site 416269006470 Protein of unknown function (DUF997); Region: DUF997; pfam06196 416269006471 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 416269006472 dimerization interface [polypeptide binding]; other site 416269006473 DNA binding site [nucleotide binding] 416269006474 corepressor binding sites; other site 416269006475 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 416269006476 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 416269006477 active site 416269006478 phosphate binding residues; other site 416269006479 catalytic residues [active] 416269006480 Site-specific recombinase; Region: SpecificRecomb; cl15411 416269006481 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 416269006482 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 416269006483 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 416269006484 putative active site [active] 416269006485 putative metal binding site [ion binding]; other site 416269006486 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 416269006487 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 416269006488 DXD motif; other site 416269006489 PgaD-like protein; Region: PgaD; cl14676 416269006490 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 416269006491 triosephosphate isomerase; Provisional; Region: PRK14567 416269006492 substrate binding site [chemical binding]; other site 416269006493 dimer interface [polypeptide binding]; other site 416269006494 catalytic triad [active] 416269006495 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 416269006496 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 416269006497 Permutation of conserved domain; other site 416269006498 active site 416269006499 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 416269006500 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 416269006501 Predicted membrane protein [Function unknown]; Region: COG1238 416269006502 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416269006503 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 416269006504 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416269006505 Peptidase family M23; Region: Peptidase_M23; pfam01551 416269006506 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 416269006507 hypothetical protein; Provisional; Region: PRK10519 416269006508 Nucleoside recognition; Region: Gate; pfam07670 416269006509 ferrochelatase; Reviewed; Region: hemH; PRK00035 416269006510 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 416269006511 C-terminal domain interface [polypeptide binding]; other site 416269006512 active site 416269006513 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 416269006514 active site 416269006515 N-terminal domain interface [polypeptide binding]; other site 416269006516 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 416269006517 ribonuclease P; Reviewed; Region: rnpA; PRK01732 416269006518 hypothetical protein; Validated; Region: PRK00041 416269006519 glutamine synthetase; Provisional; Region: glnA; PRK09469 416269006520 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 416269006521 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 416269006522 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 416269006523 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416269006524 active site 416269006525 metal binding site [ion binding]; metal-binding site 416269006526 hexamer interface [polypeptide binding]; other site 416269006527 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 416269006528 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 416269006529 dimer interface [polypeptide binding]; other site 416269006530 active site 416269006531 ADP-ribose binding site [chemical binding]; other site 416269006532 nudix motif; other site 416269006533 metal binding site [ion binding]; metal-binding site 416269006534 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 416269006535 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 416269006536 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 416269006537 Predicted membrane protein [Function unknown]; Region: COG2510 416269006538 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 416269006539 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 416269006540 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 416269006541 putative sugar binding sites [chemical binding]; other site 416269006542 Q-X-W motif; other site 416269006543 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 416269006544 putative active site [active] 416269006545 dimerization interface [polypeptide binding]; other site 416269006546 putative tRNAtyr binding site [nucleotide binding]; other site 416269006547 hypothetical protein; Reviewed; Region: PRK01637 416269006548 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 416269006549 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 416269006550 putative catalytic cysteine [active] 416269006551 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 416269006552 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 416269006553 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 416269006554 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 416269006555 ATP binding site [chemical binding]; other site 416269006556 Mg2+ binding site [ion binding]; other site 416269006557 G-X-G motif; other site 416269006558 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 416269006559 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 416269006560 ATP binding site [chemical binding]; other site 416269006561 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 416269006562 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 416269006563 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 416269006564 NAD binding site [chemical binding]; other site 416269006565 substrate binding site [chemical binding]; other site 416269006566 catalytic Zn binding site [ion binding]; other site 416269006567 tetramer interface [polypeptide binding]; other site 416269006568 structural Zn binding site [ion binding]; other site 416269006569 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 416269006570 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 416269006571 bacterial Hfq-like; Region: Hfq; cd01716 416269006572 hexamer interface [polypeptide binding]; other site 416269006573 Sm1 motif; other site 416269006574 RNA binding site [nucleotide binding]; other site 416269006575 Sm2 motif; other site 416269006576 GTPase HflX; Provisional; Region: PRK11058 416269006577 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 416269006578 HflX GTPase family; Region: HflX; cd01878 416269006579 G1 box; other site 416269006580 GTP/Mg2+ binding site [chemical binding]; other site 416269006581 Switch I region; other site 416269006582 G2 box; other site 416269006583 G3 box; other site 416269006584 Switch II region; other site 416269006585 G4 box; other site 416269006586 G5 box; other site 416269006587 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 416269006588 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 416269006589 metal binding site [ion binding]; metal-binding site 416269006590 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 416269006591 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 416269006592 ligand binding site [chemical binding]; other site 416269006593 flexible hinge region; other site 416269006594 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 416269006595 putative switch regulator; other site 416269006596 non-specific DNA interactions [nucleotide binding]; other site 416269006597 DNA binding site [nucleotide binding] 416269006598 sequence specific DNA binding site [nucleotide binding]; other site 416269006599 putative cAMP binding site [chemical binding]; other site 416269006600 hypothetical protein; Provisional; Region: PRK04966 416269006601 division inhibitor protein; Provisional; Region: slmA; PRK09480 416269006602 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416269006603 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 416269006604 trimer interface [polypeptide binding]; other site 416269006605 active site 416269006606 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 416269006607 Flavoprotein; Region: Flavoprotein; pfam02441 416269006608 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 416269006609 hypothetical protein; Reviewed; Region: PRK00024 416269006610 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 416269006611 MPN+ (JAMM) motif; other site 416269006612 Zinc-binding site [ion binding]; other site 416269006613 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 416269006614 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 416269006615 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 416269006616 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 416269006617 inhibitor-cofactor binding pocket; inhibition site 416269006618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269006619 catalytic residue [active] 416269006620 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 416269006621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269006622 catalytic residue [active] 416269006623 hypothetical protein; Provisional; Region: PRK11018 416269006624 CPxP motif; other site 416269006625 putative inner membrane protein; Provisional; Region: PRK11099 416269006626 hypothetical protein; Provisional; Region: PRK11027 416269006627 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 416269006628 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 416269006629 S-adenosylmethionine binding site [chemical binding]; other site 416269006630 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416269006631 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 416269006632 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 416269006633 Cl binding site [ion binding]; other site 416269006634 oligomer interface [polypeptide binding]; other site 416269006635 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 416269006636 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 416269006637 S-adenosylmethionine binding site [chemical binding]; other site 416269006638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 416269006639 SCP-2 sterol transfer family; Region: SCP2; pfam02036 416269006640 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 416269006641 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 416269006642 twin arginine translocase protein A; Provisional; Region: tatA; PRK01833 416269006643 sec-independent translocase; Provisional; Region: PRK01770 416269006644 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 416269006645 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 416269006646 dimer interface [polypeptide binding]; other site 416269006647 allosteric magnesium binding site [ion binding]; other site 416269006648 active site 416269006649 aspartate-rich active site metal binding site; other site 416269006650 Schiff base residues; other site 416269006651 Predicted membrane protein [Function unknown]; Region: COG3671 416269006652 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 416269006653 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 416269006654 DNA binding site [nucleotide binding] 416269006655 catalytic residue [active] 416269006656 H2TH interface [polypeptide binding]; other site 416269006657 putative catalytic residues [active] 416269006658 turnover-facilitating residue; other site 416269006659 intercalation triad [nucleotide binding]; other site 416269006660 8OG recognition residue [nucleotide binding]; other site 416269006661 putative reading head residues; other site 416269006662 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 416269006663 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 416269006664 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 416269006665 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 416269006666 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 416269006667 NAD(P) binding site [chemical binding]; other site 416269006668 homotetramer interface [polypeptide binding]; other site 416269006669 homodimer interface [polypeptide binding]; other site 416269006670 active site 416269006671 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 416269006672 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 416269006673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 416269006674 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 416269006675 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 416269006676 substrate binding pocket [chemical binding]; other site 416269006677 chain length determination region; other site 416269006678 substrate-Mg2+ binding site; other site 416269006679 catalytic residues [active] 416269006680 aspartate-rich region 1; other site 416269006681 active site lid residues [active] 416269006682 aspartate-rich region 2; other site 416269006683 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 416269006684 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 416269006685 active site 416269006686 nucleophile elbow; other site 416269006687 Predicted flavoprotein [General function prediction only]; Region: COG0431 416269006688 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416269006689 Predicted membrane protein [Function unknown]; Region: COG2259 416269006690 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 416269006691 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 416269006692 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 416269006693 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 416269006694 EamA-like transporter family; Region: EamA; pfam00892 416269006695 EamA-like transporter family; Region: EamA; pfam00892 416269006696 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 416269006697 binding surface 416269006698 Tetratricopeptide repeat; Region: TPR_16; pfam13432 416269006699 TPR motif; other site 416269006700 Protein of unknown function (DUF560); Region: DUF560; pfam04575 416269006701 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 416269006702 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416269006703 active site 416269006704 motif I; other site 416269006705 motif II; other site 416269006706 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 416269006707 motif II; other site 416269006708 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416269006709 DNA utilization protein GntX; Provisional; Region: PRK11595 416269006710 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416269006711 active site 416269006712 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 416269006713 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 416269006714 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 416269006715 S-adenosylmethionine binding site [chemical binding]; other site 416269006716 DNA polymerase III subunit psi; Validated; Region: PRK06856 416269006717 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 416269006718 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416269006719 Coenzyme A binding pocket [chemical binding]; other site 416269006720 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 416269006721 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 416269006722 ATP binding site [chemical binding]; other site 416269006723 Mg++ binding site [ion binding]; other site 416269006724 motif III; other site 416269006725 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 416269006726 nucleotide binding region [chemical binding]; other site 416269006727 ATP-binding site [chemical binding]; other site 416269006728 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 416269006729 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 416269006730 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 416269006731 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 416269006732 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 416269006733 peptide binding site [polypeptide binding]; other site 416269006734 Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like; Region: ALDH_StaphAldA1; cd07117 416269006735 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 416269006736 NAD(P) binding site [chemical binding]; other site 416269006737 catalytic residues [active] 416269006738 Predicted membrane protein [Function unknown]; Region: COG1584 416269006739 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 416269006740 anchored repeat-type ABC transporter, ATP-binding subunit; Region: anch_rpt_ABC; TIGR03771 416269006741 Walker A/P-loop; other site 416269006742 ATP binding site [chemical binding]; other site 416269006743 Q-loop/lid; other site 416269006744 ABC transporter signature motif; other site 416269006745 Walker B; other site 416269006746 D-loop; other site 416269006747 H-loop/switch region; other site 416269006748 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 416269006749 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 416269006750 siderophore binding site; other site 416269006751 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 416269006752 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 416269006753 ABC-ATPase subunit interface; other site 416269006754 dimer interface [polypeptide binding]; other site 416269006755 putative PBP binding regions; other site 416269006756 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 416269006757 ABC-ATPase subunit interface; other site 416269006758 dimer interface [polypeptide binding]; other site 416269006759 putative PBP binding regions; other site 416269006760 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 416269006761 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 416269006762 N-terminal plug; other site 416269006763 ligand-binding site [chemical binding]; other site 416269006764 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 416269006765 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 416269006766 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 416269006767 ATP binding site [chemical binding]; other site 416269006768 active site 416269006769 substrate binding site [chemical binding]; other site 416269006770 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 416269006771 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 416269006772 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 416269006773 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 416269006774 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 416269006775 NAD binding site [chemical binding]; other site 416269006776 dimerization interface [polypeptide binding]; other site 416269006777 product binding site; other site 416269006778 substrate binding site [chemical binding]; other site 416269006779 zinc binding site [ion binding]; other site 416269006780 catalytic residues [active] 416269006781 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 416269006782 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 416269006783 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416269006784 homodimer interface [polypeptide binding]; other site 416269006785 catalytic residue [active] 416269006786 Transposase IS200 like; Region: Y1_Tnp; pfam01797 416269006787 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 416269006788 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 416269006789 active site 416269006790 motif I; other site 416269006791 motif II; other site 416269006792 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 416269006793 putative active site pocket [active] 416269006794 4-fold oligomerization interface [polypeptide binding]; other site 416269006795 metal binding residues [ion binding]; metal-binding site 416269006796 3-fold/trimer interface [polypeptide binding]; other site 416269006797 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 416269006798 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 416269006799 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 416269006800 putative active site [active] 416269006801 oxyanion strand; other site 416269006802 catalytic triad [active] 416269006803 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 416269006804 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 416269006805 catalytic residues [active] 416269006806 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 416269006807 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 416269006808 substrate binding site [chemical binding]; other site 416269006809 glutamase interaction surface [polypeptide binding]; other site 416269006810 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 416269006811 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 416269006812 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 416269006813 metal binding site [ion binding]; metal-binding site 416269006814 hypothetical protein; Provisional; Region: PRK11212 416269006815 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 416269006816 active site 416269006817 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 416269006818 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416269006819 DNA binding site [nucleotide binding] 416269006820 domain linker motif; other site 416269006821 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 416269006822 dimerization interface [polypeptide binding]; other site 416269006823 ligand binding site [chemical binding]; other site 416269006824 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 416269006825 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 416269006826 substrate binding [chemical binding]; other site 416269006827 active site 416269006828 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 416269006829 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416269006830 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 416269006831 putative substrate binding site [chemical binding]; other site 416269006832 putative ATP binding site [chemical binding]; other site 416269006833 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 416269006834 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 416269006835 Multicopper oxidase; Region: Cu-oxidase; pfam00394 416269006836 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 416269006837 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416269006838 FtsX-like permease family; Region: FtsX; pfam02687 416269006839 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 416269006840 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416269006841 Walker A/P-loop; other site 416269006842 ATP binding site [chemical binding]; other site 416269006843 Q-loop/lid; other site 416269006844 ABC transporter signature motif; other site 416269006845 Walker B; other site 416269006846 D-loop; other site 416269006847 H-loop/switch region; other site 416269006848 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 416269006849 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416269006850 glycerate dehydrogenase; Provisional; Region: PRK06932 416269006851 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 416269006852 putative ligand binding site [chemical binding]; other site 416269006853 putative NAD binding site [chemical binding]; other site 416269006854 catalytic site [active] 416269006855 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 416269006856 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 416269006857 Uncharacterized conserved protein [Function unknown]; Region: COG2912 416269006858 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 416269006859 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 416269006860 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 416269006861 peptide chain release factor 1; Validated; Region: prfA; PRK00591 416269006862 This domain is found in peptide chain release factors; Region: PCRF; smart00937 416269006863 RF-1 domain; Region: RF-1; pfam00472 416269006864 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 416269006865 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 416269006866 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 416269006867 active site residue [active] 416269006868 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 416269006869 active site residue [active] 416269006870 Sulphur transport; Region: Sulf_transp; pfam04143