-- dump date 20140619_011224 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1029825000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1029825000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1029825000003 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; cl17189 1029825000004 Walker A motif; other site 1029825000005 ATP binding site [chemical binding]; other site 1029825000006 Walker B motif; other site 1029825000007 arginine finger; other site 1029825000008 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 1029825000009 DnaA box-binding interface [nucleotide binding]; other site 1029825000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1029825000011 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 1029825000012 putative DNA binding surface [nucleotide binding]; other site 1029825000013 dimer interface [polypeptide binding]; other site 1029825000014 beta-clamp/clamp loader binding surface; other site 1029825000015 beta-clamp/translesion DNA polymerase binding surface; other site 1029825000016 recombination protein F; Reviewed; Region: recF; PRK00064 1029825000017 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1029825000018 Walker A/P-loop; other site 1029825000019 ATP binding site [chemical binding]; other site 1029825000020 Q-loop/lid; other site 1029825000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825000022 ABC transporter signature motif; other site 1029825000023 Walker B; other site 1029825000024 D-loop; other site 1029825000025 H-loop/switch region; other site 1029825000026 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1029825000027 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 1029825000028 ATP binding site [chemical binding]; other site 1029825000029 substrate interface [chemical binding]; other site 1029825000030 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1029825000031 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1029825000032 putative ligand binding site [chemical binding]; other site 1029825000033 NAD binding site [chemical binding]; other site 1029825000034 dimerization interface [polypeptide binding]; other site 1029825000035 catalytic site [active] 1029825000036 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1029825000037 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825000038 Walker A/P-loop; other site 1029825000039 ATP binding site [chemical binding]; other site 1029825000040 Q-loop/lid; other site 1029825000041 ABC transporter signature motif; other site 1029825000042 Walker B; other site 1029825000043 D-loop; other site 1029825000044 H-loop/switch region; other site 1029825000045 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1029825000046 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825000047 Walker A/P-loop; other site 1029825000048 ATP binding site [chemical binding]; other site 1029825000049 Q-loop/lid; other site 1029825000050 ABC transporter signature motif; other site 1029825000051 Walker B; other site 1029825000052 D-loop; other site 1029825000053 H-loop/switch region; other site 1029825000054 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1029825000055 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1029825000056 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 1029825000057 dimer interface [polypeptide binding]; other site 1029825000058 conserved gate region; other site 1029825000059 putative PBP binding loops; other site 1029825000060 ABC-ATPase subunit interface; other site 1029825000061 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1029825000062 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 1029825000063 dimer interface [polypeptide binding]; other site 1029825000064 conserved gate region; other site 1029825000065 putative PBP binding loops; other site 1029825000066 ABC-ATPase subunit interface; other site 1029825000067 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1029825000068 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1029825000069 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1029825000070 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1029825000071 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1029825000072 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1029825000073 dimerization interface [polypeptide binding]; other site 1029825000074 ligand binding site [chemical binding]; other site 1029825000075 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 1029825000076 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 1029825000077 substrate binding site [chemical binding]; other site 1029825000078 oxyanion hole (OAH) forming residues; other site 1029825000079 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1029825000080 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1029825000081 active site 1029825000082 catalytic residues [active] 1029825000083 metal binding site [ion binding]; metal-binding site 1029825000084 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1029825000085 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1029825000086 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1029825000087 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1029825000088 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 1029825000089 carboxyltransferase (CT) interaction site; other site 1029825000090 biotinylation site [posttranslational modification]; other site 1029825000091 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1029825000092 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1029825000093 isovaleryl-CoA dehydrogenase; Region: PLN02519 1029825000094 substrate binding site [chemical binding]; other site 1029825000095 FAD binding site [chemical binding]; other site 1029825000096 catalytic base [active] 1029825000097 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1029825000098 active site 1029825000099 CoA binding site [chemical binding]; other site 1029825000100 AMP binding site [chemical binding]; other site 1029825000101 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1029825000102 acyl-activating enzyme (AAE) consensus motif; other site 1029825000103 CHRD domain; Region: CHRD; pfam07452 1029825000104 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1029825000105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 1029825000106 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 1029825000107 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1029825000108 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 1029825000109 hinge; other site 1029825000110 active site 1029825000111 cytidylate kinase; Provisional; Region: cmk; PRK00023 1029825000112 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 1029825000113 CMP-binding site; other site 1029825000114 The sites determining sugar specificity; other site 1029825000115 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1029825000116 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 1029825000117 RNA binding site [nucleotide binding]; other site 1029825000118 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 1029825000119 RNA binding site [nucleotide binding]; other site 1029825000120 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 1029825000121 RNA binding site [nucleotide binding]; other site 1029825000122 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 1029825000123 RNA binding site [nucleotide binding]; other site 1029825000124 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 1029825000125 RNA binding site [nucleotide binding]; other site 1029825000126 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 1029825000127 RNA binding site [nucleotide binding]; other site 1029825000128 Predicted membrane protein [Function unknown]; Region: COG2855 1029825000129 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1029825000130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825000131 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1029825000132 putative dimerization interface [polypeptide binding]; other site 1029825000133 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1029825000134 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 1029825000135 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1029825000136 recombination protein RecR; Reviewed; Region: recR; PRK00076 1029825000137 RecR protein; Region: RecR; pfam02132 1029825000138 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 1029825000139 putative active site [active] 1029825000140 putative metal-binding site [ion binding]; other site 1029825000141 tetramer interface [polypeptide binding]; other site 1029825000142 hypothetical protein; Validated; Region: PRK00153 1029825000143 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 1029825000144 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 1029825000145 Walker A motif; other site 1029825000146 ATP binding site [chemical binding]; other site 1029825000147 Walker B motif; other site 1029825000148 arginine finger; other site 1029825000149 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1029825000150 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 1029825000151 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1029825000152 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1029825000153 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1029825000154 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1029825000155 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 1029825000156 putative NADH binding site [chemical binding]; other site 1029825000157 putative active site [active] 1029825000158 nudix motif; other site 1029825000159 putative metal binding site [ion binding]; other site 1029825000160 prephenate dehydratase; Provisional; Region: PRK11899 1029825000161 Prephenate dehydratase; Region: PDT; pfam00800 1029825000162 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 1029825000163 putative L-Phe binding site [chemical binding]; other site 1029825000164 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1029825000165 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1029825000166 Ligand binding site; other site 1029825000167 oligomer interface; other site 1029825000168 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1029825000169 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 1029825000170 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1029825000171 putative MPT binding site; other site 1029825000172 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1029825000173 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1029825000174 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1029825000175 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1029825000176 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1029825000177 D-pathway; other site 1029825000178 Putative ubiquinol binding site [chemical binding]; other site 1029825000179 Low-spin heme (heme b) binding site [chemical binding]; other site 1029825000180 Putative water exit pathway; other site 1029825000181 Binuclear center (heme o3/CuB) [ion binding]; other site 1029825000182 K-pathway; other site 1029825000183 Putative proton exit pathway; other site 1029825000184 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1029825000185 Subunit I/III interface [polypeptide binding]; other site 1029825000186 Subunit III/IV interface [polypeptide binding]; other site 1029825000187 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 1029825000188 Bacterial SH3 domain; Region: SH3_3; pfam08239 1029825000189 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1029825000190 Surface antigen; Region: Bac_surface_Ag; pfam01103 1029825000191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1029825000192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1029825000193 Family of unknown function (DUF490); Region: DUF490; pfam04357 1029825000194 potential frameshift: common BLAST hit: gi|376279753|ref|YP_005153759.1| putative lipoprotein 1029825000195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1029825000196 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1029825000197 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 1029825000198 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1029825000199 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1029825000200 dimer interface [polypeptide binding]; other site 1029825000201 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029825000202 active site 1029825000203 metal binding site [ion binding]; metal-binding site 1029825000204 glutathione binding site [chemical binding]; other site 1029825000205 Domain of unknown function DUF59; Region: DUF59; pfam01883 1029825000206 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 1029825000207 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 1029825000208 Walker A motif; other site 1029825000209 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1029825000210 phosphoglucomutase; Region: PLN02307 1029825000211 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 1029825000212 substrate binding site [chemical binding]; other site 1029825000213 dimer interface [polypeptide binding]; other site 1029825000214 active site 1029825000215 metal binding site [ion binding]; metal-binding site 1029825000216 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1029825000217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825000218 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 1029825000219 putative effector binding pocket; other site 1029825000220 putative dimerization interface [polypeptide binding]; other site 1029825000221 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1029825000222 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1029825000223 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 1029825000224 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1029825000225 active site 1029825000226 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1029825000227 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1029825000228 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1029825000229 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 1029825000230 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1029825000231 catalytic residue [active] 1029825000232 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1029825000233 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1029825000234 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1029825000235 putative active site [active] 1029825000236 putative PHP Thumb interface [polypeptide binding]; other site 1029825000237 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 1029825000238 generic binding surface II; other site 1029825000239 generic binding surface I; other site 1029825000240 DNA Polymerase Y-family; Region: PolY_like; cd03468 1029825000241 active site 1029825000242 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1029825000243 DNA binding site [nucleotide binding] 1029825000244 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1029825000245 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1029825000246 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1029825000247 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1029825000248 trimer interface [polypeptide binding]; other site 1029825000249 Haemagglutinin; Region: HIM; pfam05662 1029825000250 Haemagglutinin; Region: HIM; pfam05662 1029825000251 YadA-like C-terminal region; Region: YadA; pfam03895 1029825000252 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 1029825000253 argininosuccinate synthase; Provisional; Region: PRK13820 1029825000254 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1029825000255 ANP binding site [chemical binding]; other site 1029825000256 Substrate Binding Site II [chemical binding]; other site 1029825000257 Substrate Binding Site I [chemical binding]; other site 1029825000258 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1029825000259 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1029825000260 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 1029825000261 FeS/SAM binding site; other site 1029825000262 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 1029825000263 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1029825000264 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 1029825000265 aromatic arch; other site 1029825000266 DCoH dimer interaction site [polypeptide binding]; other site 1029825000267 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1029825000268 DCoH tetramer interaction site [polypeptide binding]; other site 1029825000269 substrate binding site [chemical binding]; other site 1029825000270 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1029825000271 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1029825000272 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1029825000273 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 1029825000274 active site 1029825000275 catalytic triad [active] 1029825000276 oxyanion hole [active] 1029825000277 switch loop; other site 1029825000278 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825000279 H-loop/switch region; other site 1029825000280 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1029825000281 FtsX-like permease family; Region: FtsX; pfam02687 1029825000282 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1029825000283 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1029825000284 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1029825000285 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1029825000286 Coenzyme A binding pocket [chemical binding]; other site 1029825000287 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 1029825000288 Uncharacterized secreted protein [Function unknown]; Region: COG5429 1029825000289 aconitate hydratase; Validated; Region: PRK09277 1029825000290 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1029825000291 substrate binding site [chemical binding]; other site 1029825000292 ligand binding site [chemical binding]; other site 1029825000293 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1029825000294 substrate binding site [chemical binding]; other site 1029825000295 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 1029825000296 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1029825000297 Walker A/P-loop; other site 1029825000298 ATP binding site [chemical binding]; other site 1029825000299 Q-loop/lid; other site 1029825000300 ABC transporter signature motif; other site 1029825000301 Walker B; other site 1029825000302 D-loop; other site 1029825000303 H-loop/switch region; other site 1029825000304 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 1029825000305 heme exporter protein CcmC; Region: ccmC; TIGR01191 1029825000306 heme exporter protein CcmD; Region: cytochro_ccmD; TIGR03141 1029825000307 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1029825000308 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 1029825000309 catalytic residues [active] 1029825000310 central insert; other site 1029825000311 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1029825000312 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; cl02542 1029825000313 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1029825000314 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 1029825000315 active site 1029825000316 phosphorylation site [posttranslational modification] 1029825000317 intermolecular recognition site; other site 1029825000318 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1029825000319 AsnC family; Region: AsnC_trans_reg; pfam01037 1029825000320 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1029825000321 active site 1029825000322 metal binding site [ion binding]; metal-binding site 1029825000323 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 1029825000324 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1029825000325 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 1029825000326 putative active site [active] 1029825000327 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1029825000328 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1029825000329 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1029825000330 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 1029825000331 dimer interface [polypeptide binding]; other site 1029825000332 conserved gate region; other site 1029825000333 putative PBP binding loops; other site 1029825000334 ABC-ATPase subunit interface; other site 1029825000335 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 1029825000336 dimer interface [polypeptide binding]; other site 1029825000337 conserved gate region; other site 1029825000338 putative PBP binding loops; other site 1029825000339 ABC-ATPase subunit interface; other site 1029825000340 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1029825000341 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1029825000342 Walker A/P-loop; other site 1029825000343 ATP binding site [chemical binding]; other site 1029825000344 Q-loop/lid; other site 1029825000345 ABC transporter signature motif; other site 1029825000346 Walker B; other site 1029825000347 D-loop; other site 1029825000348 H-loop/switch region; other site 1029825000349 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1029825000350 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1029825000351 Putative glucoamylase; Region: Glycoamylase; pfam10091 1029825000352 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1029825000353 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1029825000354 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1029825000355 Protein of unknown function, DUF608; Region: DUF608; pfam04685 1029825000356 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 1029825000357 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 1029825000358 active site 1029825000359 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1029825000360 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 1029825000361 S-adenosylmethionine binding site [chemical binding]; other site 1029825000362 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1029825000363 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 1029825000364 putative substrate binding site [chemical binding]; other site 1029825000365 putative ATP binding site [chemical binding]; other site 1029825000366 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1029825000367 classical (c) SDRs; Region: SDR_c; cd05233 1029825000368 NAD(P) binding site [chemical binding]; other site 1029825000369 active site 1029825000370 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1029825000371 Transglycosylase; Region: Transgly; pfam00912 1029825000372 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1029825000373 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1029825000374 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1029825000375 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1029825000376 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1029825000377 catalytic site [active] 1029825000378 putative active site [active] 1029825000379 putative substrate binding site [chemical binding]; other site 1029825000380 hypothetical protein; Validated; Region: PRK09104 1029825000381 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 1029825000382 metal binding site [ion binding]; metal-binding site 1029825000383 putative dimer interface [polypeptide binding]; other site 1029825000384 DNA polymerase I; Region: pola; TIGR00593 1029825000385 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1029825000386 active site 1029825000387 metal binding site 1 [ion binding]; metal-binding site 1029825000388 putative 5' ssDNA interaction site; other site 1029825000389 metal binding site 3; metal-binding site 1029825000390 metal binding site 2 [ion binding]; metal-binding site 1029825000391 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1029825000392 putative DNA binding site [nucleotide binding]; other site 1029825000393 putative metal binding site [ion binding]; other site 1029825000394 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 1029825000395 active site 1029825000396 catalytic site [active] 1029825000397 substrate binding site [chemical binding]; other site 1029825000398 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1029825000399 active site 1029825000400 DNA binding site [nucleotide binding] 1029825000401 catalytic site [active] 1029825000402 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 1029825000403 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1029825000404 ATP binding site [chemical binding]; other site 1029825000405 Mg++ binding site [ion binding]; other site 1029825000406 motif III; other site 1029825000407 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 1029825000408 nucleotide binding region [chemical binding]; other site 1029825000409 ATP-binding site [chemical binding]; other site 1029825000410 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 1029825000411 RNA binding site [nucleotide binding]; other site 1029825000412 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1029825000413 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 1029825000414 Mg2+ binding site [ion binding]; other site 1029825000415 G-X-G motif; other site 1029825000416 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 1029825000417 anchoring element; other site 1029825000418 dimer interface [polypeptide binding]; other site 1029825000419 ATP binding site [chemical binding]; other site 1029825000420 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 1029825000421 active site 1029825000422 putative metal-binding site [ion binding]; other site 1029825000423 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1029825000424 S-formylglutathione hydrolase; Region: PLN02442 1029825000425 S-formylglutathione hydrolase; Region: PLN02442 1029825000426 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 1029825000427 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 1029825000428 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1029825000429 Coenzyme A binding pocket [chemical binding]; other site 1029825000430 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1029825000431 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1029825000432 substrate binding site [chemical binding]; other site 1029825000433 catalytic Zn binding site [ion binding]; other site 1029825000434 NAD binding site [chemical binding]; other site 1029825000435 structural Zn binding site [ion binding]; other site 1029825000436 dimer interface [polypeptide binding]; other site 1029825000437 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1029825000438 putative homodimer interface [polypeptide binding]; other site 1029825000439 putative homotetramer interface [polypeptide binding]; other site 1029825000440 putative metal binding site [ion binding]; other site 1029825000441 putative homodimer-homodimer interface [polypeptide binding]; other site 1029825000442 putative allosteric switch controlling residues; other site 1029825000443 potential frameshift: common BLAST hit: gi|256368596|ref|YP_003106102.1| ATP-dependent helicase HrpB 1029825000444 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 1029825000445 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 1029825000446 ATP binding site [chemical binding]; other site 1029825000447 putative Mg++ binding site [ion binding]; other site 1029825000448 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 1029825000449 nucleotide binding region [chemical binding]; other site 1029825000450 ATP-binding site [chemical binding]; other site 1029825000451 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1029825000452 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1029825000453 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1029825000454 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 1029825000455 ATP binding site [chemical binding]; other site 1029825000456 Mg2+ binding site [ion binding]; other site 1029825000457 G-X-G motif; other site 1029825000458 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825000459 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1029825000460 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 1029825000461 active site 1029825000462 phosphorylation site [posttranslational modification] 1029825000463 intermolecular recognition site; other site 1029825000464 dimerization interface [polypeptide binding]; other site 1029825000465 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1029825000466 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 1029825000467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1029825000468 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1029825000469 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1029825000470 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1029825000471 Universal stress protein family; Region: Usp; pfam00582 1029825000472 Ligand Binding Site [chemical binding]; other site 1029825000473 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1029825000474 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1029825000475 active site 1029825000476 HIGH motif; other site 1029825000477 dimer interface [polypeptide binding]; other site 1029825000478 KMSKS motif; other site 1029825000479 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1029825000480 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1029825000481 PII uridylyl-transferase; Provisional; Region: PRK05092 1029825000482 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1029825000483 metal binding triad; other site 1029825000484 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1029825000485 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1029825000486 Zn2+ binding site [ion binding]; other site 1029825000487 Mg2+ binding site [ion binding]; other site 1029825000488 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 1029825000489 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 1029825000490 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1029825000491 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1029825000492 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1029825000493 putative NAD(P) binding site [chemical binding]; other site 1029825000494 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1029825000495 MutS domain I; Region: MutS_I; pfam01624 1029825000496 MutS domain II; Region: MutS_II; pfam05188 1029825000497 MutS domain III; Region: MutS_III; pfam05192 1029825000498 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1029825000499 Walker A/P-loop; other site 1029825000500 ATP binding site [chemical binding]; other site 1029825000501 Q-loop/lid; other site 1029825000502 ABC transporter signature motif; other site 1029825000503 Walker B; other site 1029825000504 D-loop; other site 1029825000505 H-loop/switch region; other site 1029825000506 Putative hemolysin [General function prediction only]; Region: COG3176 1029825000507 lipoprotein signal peptidase; Provisional; Region: PRK14795 1029825000508 lipoprotein signal peptidase; Provisional; Region: PRK14787 1029825000509 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1029825000510 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1029825000511 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1029825000512 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 1029825000513 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1029825000514 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 1029825000515 IHF dimer interface [polypeptide binding]; other site 1029825000516 IHF - DNA interface [nucleotide binding]; other site 1029825000517 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1029825000518 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1029825000519 tandem repeat interface [polypeptide binding]; other site 1029825000520 oligomer interface [polypeptide binding]; other site 1029825000521 active site residues [active] 1029825000522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1029825000523 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1029825000524 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1029825000525 OstA-like protein; Region: OstA; pfam03968 1029825000526 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1029825000527 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1029825000528 Walker A/P-loop; other site 1029825000529 ATP binding site [chemical binding]; other site 1029825000530 Q-loop/lid; other site 1029825000531 ABC transporter signature motif; other site 1029825000532 Walker B; other site 1029825000533 D-loop; other site 1029825000534 H-loop/switch region; other site 1029825000535 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1029825000536 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1029825000537 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1029825000538 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1029825000539 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 1029825000540 30S subunit binding site; other site 1029825000541 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 1029825000542 active site 1029825000543 phosphorylation site [posttranslational modification] 1029825000544 Uncharacterized small protein [Function unknown]; Region: COG5568 1029825000545 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1029825000546 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1029825000547 putative dimer interface [polypeptide binding]; other site 1029825000548 Integral membrane protein [Function unknown]; Region: COG5488 1029825000549 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1029825000550 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1029825000551 minor groove reading motif; other site 1029825000552 helix-hairpin-helix signature motif; other site 1029825000553 substrate binding pocket [chemical binding]; other site 1029825000554 active site 1029825000555 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1029825000556 CysZ-like protein; Reviewed; Region: PRK12768 1029825000557 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 1029825000558 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1029825000559 substrate binding site [chemical binding]; other site 1029825000560 ATP binding site [chemical binding]; other site 1029825000561 UPF0126 domain; Region: UPF0126; pfam03458 1029825000562 Predicted membrane protein [Function unknown]; Region: COG2860 1029825000563 UPF0126 domain; Region: UPF0126; pfam03458 1029825000564 heat shock protein GrpE; Provisional; Region: PRK14141 1029825000565 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 1029825000566 dimer interface [polypeptide binding]; other site 1029825000567 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1029825000568 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1029825000569 ribonuclease PH; Reviewed; Region: rph; PRK00173 1029825000570 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1029825000571 hexamer interface [polypeptide binding]; other site 1029825000572 active site 1029825000573 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1029825000574 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1029825000575 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 1029825000576 active site 1029825000577 dimerization interface [polypeptide binding]; other site 1029825000578 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 1029825000579 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 1029825000580 FeS/SAM binding site; other site 1029825000581 HemN C-terminal domain; Region: HemN_C; pfam06969 1029825000582 Predicted methyltransferases [General function prediction only]; Region: COG0313 1029825000583 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1029825000584 putative SAM binding site [chemical binding]; other site 1029825000585 putative homodimer interface [polypeptide binding]; other site 1029825000586 hypothetical protein; Reviewed; Region: PRK12497 1029825000587 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1029825000588 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1029825000589 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1029825000590 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1029825000591 active site 1029825000592 SAM binding site [chemical binding]; other site 1029825000593 homodimer interface [polypeptide binding]; other site 1029825000594 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 1029825000595 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1029825000596 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1029825000597 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1029825000598 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1029825000599 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1029825000600 Active Sites [active] 1029825000601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1029825000602 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 1029825000603 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1029825000604 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 1029825000605 active site 1029825000606 DNA binding site [nucleotide binding] 1029825000607 BA14K-like protein; Region: BA14K; pfam07886 1029825000608 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1029825000609 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1029825000610 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1029825000611 substrate binding pocket [chemical binding]; other site 1029825000612 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1029825000613 B12 binding site [chemical binding]; other site 1029825000614 cobalt ligand [ion binding]; other site 1029825000615 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1029825000616 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1029825000617 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 1029825000618 DNA binding residues [nucleotide binding] 1029825000619 aminotransferase; Provisional; Region: PRK06105 1029825000620 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 1029825000621 inhibitor-cofactor binding pocket; inhibition site 1029825000622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825000623 catalytic residue [active] 1029825000624 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1029825000625 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1029825000626 Active Sites [active] 1029825000627 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1029825000628 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1029825000629 CysD dimerization site [polypeptide binding]; other site 1029825000630 G1 box; other site 1029825000631 putative GEF interaction site [polypeptide binding]; other site 1029825000632 GTP/Mg2+ binding site [chemical binding]; other site 1029825000633 Switch I region; other site 1029825000634 G2 box; other site 1029825000635 G3 box; other site 1029825000636 Switch II region; other site 1029825000637 G4 box; other site 1029825000638 G5 box; other site 1029825000639 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 1029825000640 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 1029825000641 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1029825000642 ligand-binding site [chemical binding]; other site 1029825000643 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 1029825000644 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1029825000645 active site 1029825000646 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1029825000647 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 1029825000648 ligand binding site [chemical binding]; other site 1029825000649 flexible hinge region; other site 1029825000650 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 1029825000651 putative switch regulator; other site 1029825000652 non-specific DNA interactions [nucleotide binding]; other site 1029825000653 DNA binding site [nucleotide binding] 1029825000654 sequence specific DNA binding site [nucleotide binding]; other site 1029825000655 putative cAMP binding site [chemical binding]; other site 1029825000656 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1029825000657 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; cl17736 1029825000658 active site 1029825000659 dimerization interface [polypeptide binding]; other site 1029825000660 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 1029825000661 DNA binding residues [nucleotide binding] 1029825000662 dimerization interface [polypeptide binding]; other site 1029825000663 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1029825000664 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1029825000665 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1029825000666 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1029825000667 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1029825000668 GAF domain; Region: GAF; pfam01590 1029825000669 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1029825000670 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1029825000671 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1029825000672 NAD(P) binding site [chemical binding]; other site 1029825000673 catalytic residues [active] 1029825000674 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1029825000675 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1029825000676 NAD binding site [chemical binding]; other site 1029825000677 substrate binding site [chemical binding]; other site 1029825000678 catalytic Zn binding site [ion binding]; other site 1029825000679 tetramer interface [polypeptide binding]; other site 1029825000680 structural Zn binding site [ion binding]; other site 1029825000681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 1029825000682 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1029825000683 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1029825000684 DNA binding site [nucleotide binding] 1029825000685 domain linker motif; other site 1029825000686 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 1029825000687 putative dimerization interface [polypeptide binding]; other site 1029825000688 putative ligand binding site [chemical binding]; other site 1029825000689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825000690 ABC transporter; Region: ABC_tran; pfam00005 1029825000691 Q-loop/lid; other site 1029825000692 ABC transporter signature motif; other site 1029825000693 Walker B; other site 1029825000694 D-loop; other site 1029825000695 H-loop/switch region; other site 1029825000696 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1029825000697 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1029825000698 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825000699 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1029825000700 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1029825000701 NAD(P) binding site [chemical binding]; other site 1029825000702 catalytic residues [active] 1029825000703 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1029825000704 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1029825000705 Putative transcription activator [Transcription]; Region: TenA; COG0819 1029825000706 NMT1/THI5 like; Region: NMT1; pfam09084 1029825000707 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 1029825000708 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 1029825000709 active site 1029825000710 thiamine phosphate binding site [chemical binding]; other site 1029825000711 pyrophosphate binding site [ion binding]; other site 1029825000712 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 1029825000713 ThiS interaction site; other site 1029825000714 putative active site [active] 1029825000715 tetramer interface [polypeptide binding]; other site 1029825000716 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1029825000717 thiS-thiF/thiG interaction site; other site 1029825000718 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1029825000719 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1029825000720 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 1029825000721 dimer interface [polypeptide binding]; other site 1029825000722 substrate binding site [chemical binding]; other site 1029825000723 ATP binding site [chemical binding]; other site 1029825000724 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 1029825000725 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1029825000726 putative active site [active] 1029825000727 heme pocket [chemical binding]; other site 1029825000728 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 1029825000729 putative active site [active] 1029825000730 heme pocket [chemical binding]; other site 1029825000731 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1029825000732 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1029825000733 metal binding site [ion binding]; metal-binding site 1029825000734 active site 1029825000735 I-site; other site 1029825000736 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1029825000737 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 1029825000738 metal-binding site [ion binding] 1029825000739 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1029825000740 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 1029825000741 metal-binding site [ion binding] 1029825000742 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1029825000743 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1029825000744 DNA binding residues [nucleotide binding] 1029825000745 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1029825000746 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 1029825000747 dimer interface [polypeptide binding]; other site 1029825000748 conserved gate region; other site 1029825000749 putative PBP binding loops; other site 1029825000750 ABC-ATPase subunit interface; other site 1029825000751 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1029825000752 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1029825000753 Walker A/P-loop; other site 1029825000754 ATP binding site [chemical binding]; other site 1029825000755 Q-loop/lid; other site 1029825000756 ABC transporter signature motif; other site 1029825000757 Walker B; other site 1029825000758 D-loop; other site 1029825000759 H-loop/switch region; other site 1029825000760 CBS domain; Region: CBS; pfam00571 1029825000761 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 1029825000762 dimer interface [polypeptide binding]; other site 1029825000763 conserved gate region; other site 1029825000764 ABC-ATPase subunit interface; other site 1029825000765 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1029825000766 Uncharacterized conserved protein [Function unknown]; Region: COG5514 1029825000767 heme-binding site [chemical binding]; other site 1029825000768 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1029825000769 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1029825000770 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1029825000771 NAD(P) binding site [chemical binding]; other site 1029825000772 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1029825000773 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1029825000774 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1029825000775 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1029825000776 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1029825000777 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1029825000778 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1029825000779 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1029825000780 Amidohydrolase; Region: Amidohydro_2; pfam04909 1029825000781 active site 1029825000782 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1029825000783 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 1029825000784 putative DNA binding site [nucleotide binding]; other site 1029825000785 putative Zn2+ binding site [ion binding]; other site 1029825000786 Bacterial transcriptional regulator; Region: IclR; pfam01614 1029825000787 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1029825000788 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1029825000789 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 1029825000790 dimer interface [polypeptide binding]; other site 1029825000791 conserved gate region; other site 1029825000792 putative PBP binding loops; other site 1029825000793 ABC-ATPase subunit interface; other site 1029825000794 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1029825000795 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 1029825000796 dimer interface [polypeptide binding]; other site 1029825000797 conserved gate region; other site 1029825000798 putative PBP binding loops; other site 1029825000799 ABC-ATPase subunit interface; other site 1029825000800 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1029825000801 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1029825000802 Walker A/P-loop; other site 1029825000803 ATP binding site [chemical binding]; other site 1029825000804 Q-loop/lid; other site 1029825000805 ABC transporter signature motif; other site 1029825000806 Walker B; other site 1029825000807 D-loop; other site 1029825000808 H-loop/switch region; other site 1029825000809 TOBE domain; Region: TOBE_2; pfam08402 1029825000810 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1029825000811 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1029825000812 active site pocket [active] 1029825000813 Uncharacterized conserved protein [Function unknown]; Region: COG3254 1029825000814 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825000815 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825000816 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1029825000817 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 1029825000818 NAD binding site [chemical binding]; other site 1029825000819 homotetramer interface [polypeptide binding]; other site 1029825000820 homodimer interface [polypeptide binding]; other site 1029825000821 active site 1029825000822 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1029825000823 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1029825000824 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1029825000825 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 1029825000826 putative active site pocket [active] 1029825000827 metal binding site [ion binding]; metal-binding site 1029825000828 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1029825000829 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1029825000830 active site 1029825000831 Int/Topo IB signature motif; other site 1029825000832 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1029825000833 Toprim domain; Region: Toprim_3; pfam13362 1029825000834 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1029825000835 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1029825000836 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1029825000837 potential frameshift: common BLAST hit: gi|376271828|ref|YP_005150406.1| flagellar protein FlgJ 1029825000838 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1029825000839 Helix-turn-helix domain; Region: HTH_19; pfam12844 1029825000840 non-specific DNA binding site [nucleotide binding]; other site 1029825000841 salt bridge; other site 1029825000842 sequence-specific DNA binding site [nucleotide binding]; other site 1029825000843 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 1029825000844 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 1029825000845 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1029825000846 non-specific DNA binding site [nucleotide binding]; other site 1029825000847 salt bridge; other site 1029825000848 sequence-specific DNA binding site [nucleotide binding]; other site 1029825000849 TIR domain; Region: TIR_2; cl17458 1029825000850 zinc-binding protein; Provisional; Region: PRK01343 1029825000851 Maf-like protein; Region: Maf; pfam02545 1029825000852 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 1029825000853 active site 1029825000854 dimer interface [polypeptide binding]; other site 1029825000855 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 1029825000856 rRNA binding site [nucleotide binding]; other site 1029825000857 predicted 30S ribosome binding site; other site 1029825000858 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1029825000859 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1029825000860 active site 1029825000861 hypothetical protein; Provisional; Region: PRK02853 1029825000862 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1029825000863 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 1029825000864 NAD binding site [chemical binding]; other site 1029825000865 dimerization interface [polypeptide binding]; other site 1029825000866 product binding site; other site 1029825000867 substrate binding site [chemical binding]; other site 1029825000868 zinc binding site [ion binding]; other site 1029825000869 catalytic residues [active] 1029825000870 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 1029825000871 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1029825000872 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 1029825000873 hinge; other site 1029825000874 active site 1029825000875 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1029825000876 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 1029825000877 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 1029825000878 active site 1029825000879 DNA binding site [nucleotide binding] 1029825000880 Int/Topo IB signature motif; other site 1029825000881 Prophage antirepressor [Transcription]; Region: COG3617 1029825000882 BRO family, N-terminal domain; Region: Bro-N; smart01040 1029825000883 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1029825000884 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1029825000885 catalytic residues [active] 1029825000886 catalytic nucleophile [active] 1029825000887 Presynaptic Site I dimer interface [polypeptide binding]; other site 1029825000888 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1029825000889 Synaptic Flat tetramer interface [polypeptide binding]; other site 1029825000890 Synaptic Site I dimer interface [polypeptide binding]; other site 1029825000891 DNA binding site [nucleotide binding] 1029825000892 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1029825000893 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; cl17320 1029825000894 DNA binding site [nucleotide binding] 1029825000895 sequence specific DNA binding site [nucleotide binding]; other site 1029825000896 putative cAMP binding site [chemical binding]; other site 1029825000897 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cl00541 1029825000898 dimerization interface [polypeptide binding]; other site 1029825000899 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1029825000900 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 1029825000901 alpha-gamma subunit interface [polypeptide binding]; other site 1029825000902 beta-gamma subunit interface [polypeptide binding]; other site 1029825000903 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 1029825000904 gamma-beta subunit interface [polypeptide binding]; other site 1029825000905 alpha-beta subunit interface [polypeptide binding]; other site 1029825000906 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1029825000907 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 1029825000908 subunit interactions [polypeptide binding]; other site 1029825000909 active site 1029825000910 flap region; other site 1029825000911 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 1029825000912 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 1029825000913 dimer interface [polypeptide binding]; other site 1029825000914 catalytic residues [active] 1029825000915 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1029825000916 UreF; Region: UreF; pfam01730 1029825000917 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1029825000918 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1029825000919 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 1029825000920 ATP binding site [chemical binding]; other site 1029825000921 Mg2+ binding site [ion binding]; other site 1029825000922 G-X-G motif; other site 1029825000923 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1029825000924 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825000925 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825000926 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1029825000927 phenylhydantoinase; Validated; Region: PRK08323 1029825000928 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1029825000929 tetramer interface [polypeptide binding]; other site 1029825000930 active site 1029825000931 allantoate amidohydrolase; Reviewed; Region: PRK12893 1029825000932 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1029825000933 active site 1029825000934 metal binding site [ion binding]; metal-binding site 1029825000935 dimer interface [polypeptide binding]; other site 1029825000936 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1029825000937 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1029825000938 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_31; cd04690 1029825000939 nudix motif; other site 1029825000940 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1029825000941 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 1029825000942 homodimer interface [polypeptide binding]; other site 1029825000943 active site 1029825000944 FMN binding site [chemical binding]; other site 1029825000945 substrate binding site [chemical binding]; other site 1029825000946 4Fe-4S binding domain; Region: Fer4; cl02805 1029825000947 4Fe-4S binding domain; Region: Fer4; pfam00037 1029825000948 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1029825000949 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1029825000950 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029825000951 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1029825000952 putative hydrophobic ligand binding site [chemical binding]; other site 1029825000953 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1029825000954 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 1029825000955 active site 1029825000956 dimer interface [polypeptide binding]; other site 1029825000957 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 1029825000958 dimer interface [polypeptide binding]; other site 1029825000959 active site 1029825000960 Predicted deacylase [General function prediction only]; Region: COG3608 1029825000961 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1029825000962 active site 1029825000963 Zn binding site [ion binding]; other site 1029825000964 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1029825000965 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 1029825000966 motif II; other site 1029825000967 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1029825000968 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1029825000969 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1029825000970 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1029825000971 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1029825000972 acyl-activating enzyme (AAE) consensus motif; other site 1029825000973 putative AMP binding site [chemical binding]; other site 1029825000974 putative active site [active] 1029825000975 putative CoA binding site [chemical binding]; other site 1029825000976 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1029825000977 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1029825000978 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1029825000979 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1029825000980 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825000981 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825000982 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1029825000983 Protein export membrane protein; Region: SecD_SecF; cl14618 1029825000984 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1029825000985 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 1029825000986 substrate binding pocket [chemical binding]; other site 1029825000987 membrane-bound complex binding site; other site 1029825000988 potential frameshift: common BLAST hit: gi|189023543|ref|YP_001934311.1| family 2 glycosyl transferase 1029825000989 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 1029825000990 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1029825000991 DXD motif; other site 1029825000992 Uncharacterized conserved protein [Function unknown]; Region: COG2326 1029825000993 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1029825000994 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 1029825000995 dimer interface [polypeptide binding]; other site 1029825000996 phosphorylation site [posttranslational modification] 1029825000997 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 1029825000998 ATP binding site [chemical binding]; other site 1029825000999 Mg2+ binding site [ion binding]; other site 1029825001000 G-X-G motif; other site 1029825001001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 1029825001002 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 1029825001003 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 1029825001004 inhibitor-cofactor binding pocket; inhibition site 1029825001005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825001006 catalytic residue [active] 1029825001007 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1029825001008 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1029825001009 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1029825001010 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 1029825001011 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1029825001012 dimerization interface [polypeptide binding]; other site 1029825001013 domain crossover interface; other site 1029825001014 redox-dependent activation switch; other site 1029825001015 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1029825001016 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 1029825001017 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 1029825001018 homodimer interface [polypeptide binding]; other site 1029825001019 substrate-cofactor binding pocket; other site 1029825001020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825001021 catalytic residue [active] 1029825001022 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 1029825001023 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 1029825001024 trimer interface [polypeptide binding]; other site 1029825001025 active site 1029825001026 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 1029825001027 trimer interface [polypeptide binding]; other site 1029825001028 active site 1029825001029 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1029825001030 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1029825001031 conserved cys residue [active] 1029825001032 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1029825001033 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1029825001034 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1029825001035 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1029825001036 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1029825001037 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 1029825001038 quinone interaction residues [chemical binding]; other site 1029825001039 active site 1029825001040 catalytic residues [active] 1029825001041 FMN binding site [chemical binding]; other site 1029825001042 substrate binding site [chemical binding]; other site 1029825001043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 1029825001044 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1029825001045 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1029825001046 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1029825001047 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 1029825001048 active site 1029825001049 phosphorylation site [posttranslational modification] 1029825001050 intermolecular recognition site; other site 1029825001051 dimerization interface [polypeptide binding]; other site 1029825001052 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 1029825001053 DNA binding residues [nucleotide binding] 1029825001054 dimerization interface [polypeptide binding]; other site 1029825001055 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1029825001056 Na binding site [ion binding]; other site 1029825001057 PAS fold; Region: PAS_7; pfam12860 1029825001058 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1029825001059 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 1029825001060 dimer interface [polypeptide binding]; other site 1029825001061 phosphorylation site [posttranslational modification] 1029825001062 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 1029825001063 ATP binding site [chemical binding]; other site 1029825001064 Mg2+ binding site [ion binding]; other site 1029825001065 G-X-G motif; other site 1029825001066 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1029825001067 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 1029825001068 active site 1029825001069 phosphorylation site [posttranslational modification] 1029825001070 intermolecular recognition site; other site 1029825001071 dimerization interface [polypeptide binding]; other site 1029825001072 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1029825001073 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1029825001074 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1029825001075 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 1029825001076 substrate-cofactor binding pocket; other site 1029825001077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825001078 catalytic residue [active] 1029825001079 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1029825001080 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1029825001081 putative active site [active] 1029825001082 putative metal binding site [ion binding]; other site 1029825001083 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 1029825001084 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1029825001085 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 1029825001086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1029825001087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825001088 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1029825001089 putative dimerization interface [polypeptide binding]; other site 1029825001090 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1029825001091 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1029825001092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1029825001093 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1029825001094 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1029825001095 active site 1029825001096 ATP-binding site [chemical binding]; other site 1029825001097 pantoate-binding site; other site 1029825001098 HXXH motif; other site 1029825001099 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1029825001100 active site 1029825001101 oligomerization interface [polypeptide binding]; other site 1029825001102 metal binding site [ion binding]; metal-binding site 1029825001103 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1029825001104 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1029825001105 FAD binding pocket [chemical binding]; other site 1029825001106 FAD binding motif [chemical binding]; other site 1029825001107 phosphate binding motif [ion binding]; other site 1029825001108 beta-alpha-beta structure motif; other site 1029825001109 NAD binding pocket [chemical binding]; other site 1029825001110 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1029825001111 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1029825001112 dimer interface [polypeptide binding]; other site 1029825001113 active site 1029825001114 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1029825001115 catalytic residues [active] 1029825001116 substrate binding site [chemical binding]; other site 1029825001117 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1029825001118 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1029825001119 NAD(P) binding pocket [chemical binding]; other site 1029825001120 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1029825001121 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1029825001122 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1029825001123 multidrug efflux protein; Reviewed; Region: PRK01766 1029825001124 cation binding site [ion binding]; other site 1029825001125 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1029825001126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 1029825001127 Cache domain; Region: Cache_2; pfam08269 1029825001128 Histidine kinase; Region: HisKA_3; pfam07730 1029825001129 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 1029825001130 ATP binding site [chemical binding]; other site 1029825001131 Mg2+ binding site [ion binding]; other site 1029825001132 G-X-G motif; other site 1029825001133 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1029825001134 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 1029825001135 active site 1029825001136 phosphorylation site [posttranslational modification] 1029825001137 intermolecular recognition site; other site 1029825001138 dimerization interface [polypeptide binding]; other site 1029825001139 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 1029825001140 DNA binding residues [nucleotide binding] 1029825001141 dimerization interface [polypeptide binding]; other site 1029825001142 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1029825001143 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1029825001144 DctM-like transporters; Region: DctM; pfam06808 1029825001145 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1029825001146 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1029825001147 hypothetical protein; Provisional; Region: PRK11171 1029825001148 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 1029825001149 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1029825001150 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1029825001151 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1029825001152 active site 1029825001153 catalytic site [active] 1029825001154 tetramer interface [polypeptide binding]; other site 1029825001155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1029825001156 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 1029825001157 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1029825001158 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1029825001159 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 1029825001160 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1029825001161 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1029825001162 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1029825001163 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1029825001164 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1029825001165 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1029825001166 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825001167 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 1029825001168 putative effector binding pocket; other site 1029825001169 dimerization interface [polypeptide binding]; other site 1029825001170 Predicted membrane protein [Function unknown]; Region: COG3748 1029825001171 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1029825001172 Cytochrome c; Region: Cytochrom_C; pfam00034 1029825001173 guanine deaminase; Provisional; Region: PRK09228 1029825001174 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1029825001175 active site 1029825001176 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1029825001177 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1029825001178 MOFRL family; Region: MOFRL; pfam05161 1029825001179 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1029825001180 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1029825001181 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 1029825001182 metal-binding site [ion binding] 1029825001183 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1029825001184 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 1029825001185 motif II; other site 1029825001186 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 1029825001187 FixH; Region: FixH; pfam05751 1029825001188 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1029825001189 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1029825001190 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1029825001191 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1029825001192 Cytochrome c; Region: Cytochrom_C; pfam00034 1029825001193 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1029825001194 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1029825001195 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1029825001196 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1029825001197 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1029825001198 Low-spin heme binding site [chemical binding]; other site 1029825001199 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1029825001200 Putative water exit pathway; other site 1029825001201 Binuclear center (active site) [active] 1029825001202 Putative proton exit pathway; other site 1029825001203 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1029825001204 metal binding site 2 [ion binding]; metal-binding site 1029825001205 putative DNA binding helix; other site 1029825001206 metal binding site 1 [ion binding]; metal-binding site 1029825001207 dimer interface [polypeptide binding]; other site 1029825001208 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1029825001209 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1029825001210 catalytic residues [active] 1029825001211 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1029825001212 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1029825001213 NAD(P) binding site [chemical binding]; other site 1029825001214 catalytic residues [active] 1029825001215 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1029825001216 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1029825001217 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1029825001218 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825001219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825001220 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 1029825001221 DNA binding site [nucleotide binding] 1029825001222 active site 1029825001223 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 1029825001224 ArsC family; Region: ArsC; pfam03960 1029825001225 putative catalytic residues [active] 1029825001226 Predicted membrane protein [Function unknown]; Region: COG4129 1029825001227 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1029825001228 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 1029825001229 putative substrate translocation pore; other site 1029825001230 D-galactonate transporter; Region: 2A0114; TIGR00893 1029825001231 microcin B17 transporter; Reviewed; Region: PRK11098 1029825001232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 1029825001233 GTP-binding protein Der; Reviewed; Region: PRK00093 1029825001234 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1029825001235 G1 box; other site 1029825001236 GTP/Mg2+ binding site [chemical binding]; other site 1029825001237 Switch I region; other site 1029825001238 G2 box; other site 1029825001239 Switch II region; other site 1029825001240 G3 box; other site 1029825001241 G4 box; other site 1029825001242 G5 box; other site 1029825001243 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1029825001244 G1 box; other site 1029825001245 GTP/Mg2+ binding site [chemical binding]; other site 1029825001246 Switch I region; other site 1029825001247 G2 box; other site 1029825001248 G3 box; other site 1029825001249 Switch II region; other site 1029825001250 G4 box; other site 1029825001251 G5 box; other site 1029825001252 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1029825001253 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1029825001254 nucleotide binding site [chemical binding]; other site 1029825001255 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1029825001256 SBD interface [polypeptide binding]; other site 1029825001257 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 1029825001258 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1029825001259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1029825001260 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1029825001261 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1029825001262 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1029825001263 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 1029825001264 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1029825001265 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 1029825001266 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1029825001267 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1029825001268 RNA/DNA hybrid binding site [nucleotide binding]; other site 1029825001269 active site 1029825001270 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1029825001271 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 1029825001272 FeS/SAM binding site; other site 1029825001273 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1029825001274 active site 1029825001275 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 1029825001276 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1029825001277 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1029825001278 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1029825001279 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1029825001280 tandem repeat interface [polypeptide binding]; other site 1029825001281 oligomer interface [polypeptide binding]; other site 1029825001282 active site residues [active] 1029825001283 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1029825001284 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 1029825001285 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1029825001286 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1029825001287 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1029825001288 substrate binding pocket [chemical binding]; other site 1029825001289 chain length determination region; other site 1029825001290 substrate-Mg2+ binding site; other site 1029825001291 catalytic residues [active] 1029825001292 aspartate-rich region 1; other site 1029825001293 active site lid residues [active] 1029825001294 aspartate-rich region 2; other site 1029825001295 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 1029825001296 binding surface 1029825001297 TPR motif; other site 1029825001298 TPR repeat; Region: TPR_11; pfam13414 1029825001299 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 1029825001300 binding surface 1029825001301 TPR motif; other site 1029825001302 TPR repeat; Region: TPR_11; pfam13414 1029825001303 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 1029825001304 binding surface 1029825001305 TPR motif; other site 1029825001306 TPR repeat; Region: TPR_11; pfam13414 1029825001307 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1029825001308 active site 1029825001309 dimer interface [polypeptide binding]; other site 1029825001310 motif 2; other site 1029825001311 motif 3; other site 1029825001312 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1029825001313 DALR anticodon binding domain; Region: DALR_1; pfam05746 1029825001314 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1029825001315 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1029825001316 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1029825001317 FAD binding domain; Region: FAD_binding_4; pfam01565 1029825001318 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1029825001319 enoyl-CoA hydratase; Provisional; Region: PRK06688 1029825001320 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 1029825001321 substrate binding site [chemical binding]; other site 1029825001322 oxyanion hole (OAH) forming residues; other site 1029825001323 trimer interface [polypeptide binding]; other site 1029825001324 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1029825001325 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1029825001326 active site 1029825001327 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1029825001328 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1029825001329 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1029825001330 metal binding site [ion binding]; metal-binding site 1029825001331 active site 1029825001332 I-site; other site 1029825001333 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1029825001334 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1029825001335 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1029825001336 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1029825001337 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 1029825001338 UbiA prenyltransferase family; Region: UbiA; pfam01040 1029825001339 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1029825001340 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1029825001341 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1029825001342 chaperone protein DnaJ; Provisional; Region: PRK14299 1029825001343 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 1029825001344 HSP70 interaction site [polypeptide binding]; other site 1029825001345 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1029825001346 dimer interface [polypeptide binding]; other site 1029825001347 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 1029825001348 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1029825001349 NAD binding site [chemical binding]; other site 1029825001350 homotetramer interface [polypeptide binding]; other site 1029825001351 homodimer interface [polypeptide binding]; other site 1029825001352 substrate binding site [chemical binding]; other site 1029825001353 active site 1029825001354 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 1029825001355 catalytic core [active] 1029825001356 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 1029825001357 DNA-binding site [nucleotide binding]; DNA binding site 1029825001358 RNA-binding motif; other site 1029825001359 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1029825001360 putative acyl-acceptor binding pocket; other site 1029825001361 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 1029825001362 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1029825001363 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1029825001364 Tetramer interface [polypeptide binding]; other site 1029825001365 active site 1029825001366 FMN-binding site [chemical binding]; other site 1029825001367 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1029825001368 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1029825001369 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 1029825001370 dimerization interface [polypeptide binding]; other site 1029825001371 active site 1029825001372 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1029825001373 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1029825001374 putative active site [active] 1029825001375 Zn binding site [ion binding]; other site 1029825001376 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1029825001377 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1029825001378 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1029825001379 Predicted membrane protein [Function unknown]; Region: COG2261 1029825001380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 1029825001381 Pirin-related protein [General function prediction only]; Region: COG1741 1029825001382 Pirin; Region: Pirin; pfam02678 1029825001383 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1029825001384 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1029825001385 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 1029825001386 TPP-binding site; other site 1029825001387 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 1029825001388 PYR/PP interface [polypeptide binding]; other site 1029825001389 dimer interface [polypeptide binding]; other site 1029825001390 TPP binding site [chemical binding]; other site 1029825001391 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1029825001392 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1029825001393 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 1029825001394 RNA binding surface [nucleotide binding]; other site 1029825001395 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 1029825001396 S-adenosylmethionine binding site [chemical binding]; other site 1029825001397 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1029825001398 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1029825001399 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1029825001400 Predicted periplasmic protein [General function prediction only]; Region: COG3895 1029825001401 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1029825001402 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1029825001403 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1029825001404 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1029825001405 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1029825001406 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1029825001407 Walker A/P-loop; other site 1029825001408 ATP binding site [chemical binding]; other site 1029825001409 Q-loop/lid; other site 1029825001410 ABC transporter signature motif; other site 1029825001411 Walker B; other site 1029825001412 D-loop; other site 1029825001413 H-loop/switch region; other site 1029825001414 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1029825001415 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1029825001416 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1029825001417 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1029825001418 classical (c) SDRs; Region: SDR_c; cd05233 1029825001419 NAD(P) binding site [chemical binding]; other site 1029825001420 active site 1029825001421 amidophosphoribosyltransferase; Provisional; Region: PRK09123 1029825001422 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 1029825001423 active site 1029825001424 tetramer interface [polypeptide binding]; other site 1029825001425 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029825001426 active site 1029825001427 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1029825001428 Colicin V production protein; Region: Colicin_V; pfam02674 1029825001429 DNA repair protein RadA; Provisional; Region: PRK11823 1029825001430 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 1029825001431 Walker A motif/ATP binding site; other site 1029825001432 ATP binding site [chemical binding]; other site 1029825001433 Walker B motif; other site 1029825001434 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1029825001435 replicative DNA helicase; Provisional; Region: PRK09165 1029825001436 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1029825001437 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 1029825001438 Walker A motif; other site 1029825001439 ATP binding site [chemical binding]; other site 1029825001440 Walker B motif; other site 1029825001441 DNA binding loops [nucleotide binding] 1029825001442 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1029825001443 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 1029825001444 S-adenosylmethionine binding site [chemical binding]; other site 1029825001445 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1029825001446 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1029825001447 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1029825001448 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1029825001449 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1029825001450 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1029825001451 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1029825001452 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 1029825001453 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1029825001454 NAD(P) binding site [chemical binding]; other site 1029825001455 homotetramer interface [polypeptide binding]; other site 1029825001456 homodimer interface [polypeptide binding]; other site 1029825001457 active site 1029825001458 acyl carrier protein; Provisional; Region: acpP; PRK00982 1029825001459 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1029825001460 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 1029825001461 dimer interface [polypeptide binding]; other site 1029825001462 active site 1029825001463 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1029825001464 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1029825001465 dimerization interface [polypeptide binding]; other site 1029825001466 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 1029825001467 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1029825001468 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1029825001469 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1029825001470 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 1029825001471 catalytic site [active] 1029825001472 G-X2-G-X-G-K; other site 1029825001473 protease TldD; Provisional; Region: tldD; PRK10735 1029825001474 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1029825001475 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1029825001476 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1029825001477 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1029825001478 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1029825001479 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1029825001480 Subunit I/III interface [polypeptide binding]; other site 1029825001481 D-pathway; other site 1029825001482 Subunit I/VIIc interface [polypeptide binding]; other site 1029825001483 Subunit I/IV interface [polypeptide binding]; other site 1029825001484 Subunit I/II interface [polypeptide binding]; other site 1029825001485 Low-spin heme (heme a) binding site [chemical binding]; other site 1029825001486 Subunit I/VIIa interface [polypeptide binding]; other site 1029825001487 Subunit I/VIa interface [polypeptide binding]; other site 1029825001488 Dimer interface; other site 1029825001489 Putative water exit pathway; other site 1029825001490 Binuclear center (heme a3/CuB) [ion binding]; other site 1029825001491 K-pathway; other site 1029825001492 Subunit I/Vb interface [polypeptide binding]; other site 1029825001493 Putative proton exit pathway; other site 1029825001494 Subunit I/VIb interface; other site 1029825001495 Subunit I/VIc interface [polypeptide binding]; other site 1029825001496 Electron transfer pathway; other site 1029825001497 Subunit I/VIIIb interface [polypeptide binding]; other site 1029825001498 Subunit I/VIIb interface [polypeptide binding]; other site 1029825001499 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1029825001500 UbiA prenyltransferase family; Region: UbiA; pfam01040 1029825001501 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1029825001502 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1029825001503 Subunit III/VIIa interface [polypeptide binding]; other site 1029825001504 Phospholipid binding site [chemical binding]; other site 1029825001505 Subunit I/III interface [polypeptide binding]; other site 1029825001506 Subunit III/VIb interface [polypeptide binding]; other site 1029825001507 Subunit III/VIa interface; other site 1029825001508 Subunit III/Vb interface [polypeptide binding]; other site 1029825001509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 1029825001510 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1029825001511 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1029825001512 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1029825001513 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1029825001514 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 1029825001515 putative active site [active] 1029825001516 putative substrate binding site [chemical binding]; other site 1029825001517 ATP binding site [chemical binding]; other site 1029825001518 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1029825001519 RNA/DNA hybrid binding site [nucleotide binding]; other site 1029825001520 active site 1029825001521 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 1029825001522 catalytic triad [active] 1029825001523 dimer interface [polypeptide binding]; other site 1029825001524 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 1029825001525 hypothetical protein; Validated; Region: PRK00228 1029825001526 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1029825001527 PAS fold; Region: PAS_3; pfam08447 1029825001528 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1029825001529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1029825001530 metal binding site [ion binding]; metal-binding site 1029825001531 active site 1029825001532 I-site; other site 1029825001533 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1029825001534 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1029825001535 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1029825001536 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1029825001537 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1029825001538 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1029825001539 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1029825001540 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1029825001541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825001542 catalytic residue [active] 1029825001543 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1029825001544 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1029825001545 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1029825001546 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1029825001547 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 1029825001548 active site 1029825001549 motif I; other site 1029825001550 motif II; other site 1029825001551 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1029825001552 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1029825001553 Cl- selectivity filter; other site 1029825001554 Cl- binding residues [ion binding]; other site 1029825001555 pore gating glutamate residue; other site 1029825001556 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1029825001557 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1029825001558 DNA methylase; Region: N6_N4_Mtase; pfam01555 1029825001559 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1029825001560 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 1029825001561 motif II; other site 1029825001562 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1029825001563 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1029825001564 minor groove reading motif; other site 1029825001565 helix-hairpin-helix signature motif; other site 1029825001566 substrate binding pocket [chemical binding]; other site 1029825001567 active site 1029825001568 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1029825001569 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 1029825001570 DNA binding and oxoG recognition site [nucleotide binding] 1029825001571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 1029825001572 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1029825001573 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1029825001574 catalytic residues [active] 1029825001575 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1029825001576 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1029825001577 Walker A/P-loop; other site 1029825001578 ATP binding site [chemical binding]; other site 1029825001579 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1029825001580 ABC transporter signature motif; other site 1029825001581 Walker B; other site 1029825001582 D-loop; other site 1029825001583 H-loop/switch region; other site 1029825001584 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1029825001585 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029825001586 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1029825001587 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1029825001588 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1029825001589 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1029825001590 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1029825001591 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1029825001592 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 1029825001593 NodB motif; other site 1029825001594 putative active site [active] 1029825001595 putative catalytic site [active] 1029825001596 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1029825001597 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1029825001598 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1029825001599 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1029825001600 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1029825001601 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 1029825001602 active site 1029825001603 homotetramer interface [polypeptide binding]; other site 1029825001604 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 1029825001605 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1029825001606 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1029825001607 NAD(P) binding site [chemical binding]; other site 1029825001608 homodimer interface [polypeptide binding]; other site 1029825001609 substrate binding site [chemical binding]; other site 1029825001610 active site 1029825001611 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1029825001612 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1029825001613 Mg++ binding site [ion binding]; other site 1029825001614 putative catalytic motif [active] 1029825001615 putative substrate binding site [chemical binding]; other site 1029825001616 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 1029825001617 HTH-like domain; Region: HTH_21; pfam13276 1029825001618 Integrase core domain; Region: rve; pfam00665 1029825001619 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 1029825001620 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 1029825001621 active site 1029825001622 cosubstrate binding site; other site 1029825001623 substrate binding site [chemical binding]; other site 1029825001624 catalytic site [active] 1029825001625 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1029825001626 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1029825001627 Walker A/P-loop; other site 1029825001628 ATP binding site [chemical binding]; other site 1029825001629 Q-loop/lid; other site 1029825001630 ABC transporter signature motif; other site 1029825001631 Walker B; other site 1029825001632 D-loop; other site 1029825001633 H-loop/switch region; other site 1029825001634 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1029825001635 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1029825001636 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1029825001637 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 1029825001638 inhibitor-cofactor binding pocket; inhibition site 1029825001639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825001640 catalytic residue [active] 1029825001641 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1029825001642 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1029825001643 NADP-binding site; other site 1029825001644 homotetramer interface [polypeptide binding]; other site 1029825001645 substrate binding site [chemical binding]; other site 1029825001646 homodimer interface [polypeptide binding]; other site 1029825001647 active site 1029825001648 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825001649 Integrase core domain; Region: rve; pfam00665 1029825001650 Integrase core domain; Region: rve; pfam00665 1029825001651 Integrase core domain; Region: rve_3; pfam13683 1029825001652 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825001653 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1029825001654 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1029825001655 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029825001656 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825001657 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1029825001658 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1029825001659 Integrase core domain; Region: rve; pfam00665 1029825001660 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825001661 Transposase; Region: HTH_Tnp_1; cl17663 1029825001662 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 1029825001663 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1029825001664 active site 1029825001665 substrate binding site [chemical binding]; other site 1029825001666 metal binding site [ion binding]; metal-binding site 1029825001667 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1029825001668 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1029825001669 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1029825001670 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 1029825001671 putative active cleft [active] 1029825001672 dimerization interface [polypeptide binding]; other site 1029825001673 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029825001674 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 1029825001675 putative ADP-binding pocket [chemical binding]; other site 1029825001676 potential frameshift: common BLAST hit: gi|256368984|ref|YP_003106490.1| ribose ABC transporter, ATP-binding protein 1029825001677 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1029825001678 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1029825001679 Walker A/P-loop; other site 1029825001680 ATP binding site [chemical binding]; other site 1029825001681 Q-loop/lid; other site 1029825001682 ABC transporter signature motif; other site 1029825001683 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1029825001684 Q-loop/lid; other site 1029825001685 ABC transporter signature motif; other site 1029825001686 Walker B; other site 1029825001687 D-loop; other site 1029825001688 H-loop/switch region; other site 1029825001689 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1029825001690 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1029825001691 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 1029825001692 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825001693 TM-ABC transporter signature motif; other site 1029825001694 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1029825001695 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 1029825001696 putative ligand binding site [chemical binding]; other site 1029825001697 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1029825001698 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; cl12060 1029825001699 Metal-binding active site; metal-binding site 1029825001700 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1029825001701 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825001702 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825001703 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1029825001704 xylose isomerase; Provisional; Region: PRK05474 1029825001705 xylose isomerase; Region: xylose_isom_A; TIGR02630 1029825001706 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1029825001707 N- and C-terminal domain interface [polypeptide binding]; other site 1029825001708 D-xylulose kinase; Region: XylB; TIGR01312 1029825001709 active site 1029825001710 MgATP binding site [chemical binding]; other site 1029825001711 catalytic site [active] 1029825001712 metal binding site [ion binding]; metal-binding site 1029825001713 xylulose binding site [chemical binding]; other site 1029825001714 homodimer interface [polypeptide binding]; other site 1029825001715 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1029825001716 DNA binding site [nucleotide binding] 1029825001717 domain linker motif; other site 1029825001718 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1029825001719 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1029825001720 putative ligand binding site [chemical binding]; other site 1029825001721 Helix-turn-helix domain; Region: HTH_18; pfam12833 1029825001722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825001723 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1029825001724 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1029825001725 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1029825001726 NAD(P) binding site [chemical binding]; other site 1029825001727 catalytic residues [active] 1029825001728 choline dehydrogenase; Validated; Region: PRK02106 1029825001729 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1029825001730 transcriptional regulator BetI; Validated; Region: PRK00767 1029825001731 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1029825001732 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1029825001733 L-asparaginase II [Amino acid transport and metabolism]; Region: AnsA; COG4448 1029825001734 transcription elongation factor regulatory protein; Validated; Region: PRK06342 1029825001735 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1029825001736 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 1029825001737 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1029825001738 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1029825001739 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1029825001740 Cl binding site [ion binding]; other site 1029825001741 oligomer interface [polypeptide binding]; other site 1029825001742 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1029825001743 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825001744 DNA-binding site [nucleotide binding]; DNA binding site 1029825001745 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1029825001746 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1029825001747 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 1029825001748 putative substrate translocation pore; other site 1029825001749 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1029825001750 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1029825001751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1029825001752 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1029825001753 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1029825001754 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 1029825001755 motif II; other site 1029825001756 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1029825001757 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1029825001758 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1029825001759 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1029825001760 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1029825001761 Predicted transcriptional regulator [Transcription]; Region: COG4957 1029825001762 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1029825001763 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 1029825001764 DnaA box-binding interface [nucleotide binding]; other site 1029825001765 amidase; Validated; Region: PRK05962 1029825001766 amidase; Provisional; Region: PRK07056 1029825001767 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1029825001768 Flavin Reductases; Region: FlaRed; cl00801 1029825001769 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; cl02459 1029825001770 putative active site [active] 1029825001771 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1029825001772 heme pocket [chemical binding]; other site 1029825001773 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 1029825001774 dimer interface [polypeptide binding]; other site 1029825001775 phosphorylation site [posttranslational modification] 1029825001776 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 1029825001777 ATP binding site [chemical binding]; other site 1029825001778 Mg2+ binding site [ion binding]; other site 1029825001779 G-X-G motif; other site 1029825001780 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1029825001781 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1029825001782 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1029825001783 Uncharacterized conserved protein [Function unknown]; Region: COG5447 1029825001784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 1029825001785 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 1029825001786 Predicted integral membrane protein [Function unknown]; Region: COG5436 1029825001787 Uncharacterized conserved protein [Function unknown]; Region: COG5402 1029825001788 Transglycosylase; Region: Transgly; pfam00912 1029825001789 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1029825001790 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1029825001791 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1029825001792 Uncharacterized conserved protein [Function unknown]; Region: COG5323 1029825001793 Terminase-like family; Region: Terminase_6; pfam03237 1029825001794 Phage-related protein [Function unknown]; Region: COG4695 1029825001795 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 1029825001796 Predicted secreted protein [Function unknown]; Region: COG5437 1029825001797 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 1029825001798 Phage-related minor tail protein [Function unknown]; Region: COG5281 1029825001799 TIGR02217 family protein; Region: chp_TIGR02217 1029825001800 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 1029825001801 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 1029825001802 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 1029825001803 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1029825001804 putative phage cell wall peptidase, NlpC/P60 family; Region: phage_NlpC_fam; TIGR02219 1029825001805 potential frameshift: common BLAST hit: gi|340790239|ref|YP_004755704.1| phage host specificity protein 1029825001806 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 1029825001807 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1029825001808 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029825001809 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 1029825001810 active site 1029825001811 phosphorylation site [posttranslational modification] 1029825001812 intermolecular recognition site; other site 1029825001813 dimerization interface [polypeptide binding]; other site 1029825001814 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 1029825001815 DNA binding site [nucleotide binding] 1029825001816 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1029825001817 HAMP domain; Region: HAMP; pfam00672 1029825001818 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 1029825001819 ATP binding site [chemical binding]; other site 1029825001820 Mg2+ binding site [ion binding]; other site 1029825001821 G-X-G motif; other site 1029825001822 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1029825001823 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1029825001824 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1029825001825 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1029825001826 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1029825001827 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 1029825001828 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1029825001829 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1029825001830 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 1029825001831 protein binding site [polypeptide binding]; other site 1029825001832 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 1029825001833 protein binding site [polypeptide binding]; other site 1029825001834 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029825001835 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 1029825001836 active site 1029825001837 phosphorylation site [posttranslational modification] 1029825001838 intermolecular recognition site; other site 1029825001839 dimerization interface [polypeptide binding]; other site 1029825001840 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 1029825001841 DNA binding site [nucleotide binding] 1029825001842 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1029825001843 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1029825001844 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 1029825001845 dimerization interface [polypeptide binding]; other site 1029825001846 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 1029825001847 dimer interface [polypeptide binding]; other site 1029825001848 phosphorylation site [posttranslational modification] 1029825001849 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 1029825001850 ATP binding site [chemical binding]; other site 1029825001851 Mg2+ binding site [ion binding]; other site 1029825001852 G-X-G motif; other site 1029825001853 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 1029825001854 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1029825001855 metal binding triad; other site 1029825001856 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1029825001857 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1029825001858 metal binding triad; other site 1029825001859 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1029825001860 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 1029825001861 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 1029825001862 O-Antigen ligase; Region: Wzy_C; pfam04932 1029825001863 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 1029825001864 PAS fold; Region: PAS_3; pfam08447 1029825001865 putative active site [active] 1029825001866 heme pocket [chemical binding]; other site 1029825001867 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1029825001868 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 1029825001869 dimer interface [polypeptide binding]; other site 1029825001870 phosphorylation site [posttranslational modification] 1029825001871 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 1029825001872 ATP binding site [chemical binding]; other site 1029825001873 Mg2+ binding site [ion binding]; other site 1029825001874 G-X-G motif; other site 1029825001875 aminopeptidase N; Provisional; Region: pepN; PRK14015 1029825001876 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1029825001877 active site 1029825001878 Zn binding site [ion binding]; other site 1029825001879 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1029825001880 EamA-like transporter family; Region: EamA; pfam00892 1029825001881 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 1029825001882 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1029825001883 putative substrate translocation pore; other site 1029825001884 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1029825001885 Fe-S cluster binding site [ion binding]; other site 1029825001886 active site 1029825001887 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1029825001888 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1029825001889 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1029825001890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 1029825001891 putative catalytic site [active] 1029825001892 putative metal binding site [ion binding]; other site 1029825001893 putative phosphate binding site [ion binding]; other site 1029825001894 AMP nucleosidase; Provisional; Region: PRK08292 1029825001895 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1029825001896 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1029825001897 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 1029825001898 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1029825001899 C-terminal domain interface [polypeptide binding]; other site 1029825001900 GSH binding site (G-site) [chemical binding]; other site 1029825001901 dimer interface [polypeptide binding]; other site 1029825001902 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1029825001903 N-terminal domain interface [polypeptide binding]; other site 1029825001904 putative dimer interface [polypeptide binding]; other site 1029825001905 active site 1029825001906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 1029825001907 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1029825001908 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1029825001909 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1029825001910 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1029825001911 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1029825001912 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1029825001913 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 1029825001914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825001915 homodimer interface [polypeptide binding]; other site 1029825001916 catalytic residue [active] 1029825001917 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 1029825001918 active site 1029825001919 DNA binding site [nucleotide binding] 1029825001920 Int/Topo IB signature motif; other site 1029825001921 Porin subfamily; Region: Porin_2; pfam02530 1029825001922 Porin subfamily; Region: Porin_2; pfam02530 1029825001923 Brucella outer membrane protein 2; Region: Brucella_OMP2; pfam05244 1029825001924 Porin subfamily; Region: Porin_2; pfam02530 1029825001925 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1029825001926 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1029825001927 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 1029825001928 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1029825001929 catalytic residue [active] 1029825001930 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1029825001931 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1029825001932 dimer interface [polypeptide binding]; other site 1029825001933 active site 1029825001934 catalytic residue [active] 1029825001935 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 1029825001936 SmpB-tmRNA interface; other site 1029825001937 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 1029825001938 Fe-S cluster binding site [ion binding]; other site 1029825001939 DNA binding site [nucleotide binding] 1029825001940 active site 1029825001941 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1029825001942 LabA_like proteins; Region: LabA; cd10911 1029825001943 putative metal binding site [ion binding]; other site 1029825001944 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1029825001945 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1029825001946 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1029825001947 Zn2+ binding site [ion binding]; other site 1029825001948 Mg2+ binding site [ion binding]; other site 1029825001949 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1029825001950 synthetase active site [active] 1029825001951 NTP binding site [chemical binding]; other site 1029825001952 metal binding site [ion binding]; metal-binding site 1029825001953 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 1029825001954 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1029825001955 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029825001956 active site 1029825001957 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1029825001958 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 1029825001959 ligand binding site [chemical binding]; other site 1029825001960 flexible hinge region; other site 1029825001961 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 1029825001962 putative switch regulator; other site 1029825001963 non-specific DNA interactions [nucleotide binding]; other site 1029825001964 DNA binding site [nucleotide binding] 1029825001965 sequence specific DNA binding site [nucleotide binding]; other site 1029825001966 putative cAMP binding site [chemical binding]; other site 1029825001967 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 1029825001968 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 1029825001969 FeS/SAM binding site; other site 1029825001970 HemN C-terminal domain; Region: HemN_C; pfam06969 1029825001971 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 1029825001972 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1029825001973 putative substrate translocation pore; other site 1029825001974 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1029825001975 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825001976 Helix-turn-helix domain; Region: HTH_18; pfam12833 1029825001977 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825001978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 1029825001979 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1029825001980 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 1029825001981 Catalytic site [active] 1029825001982 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1029825001983 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 1029825001984 ribonuclease III; Reviewed; Region: PRK12371 1029825001985 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 1029825001986 dimerization interface [polypeptide binding]; other site 1029825001987 active site 1029825001988 metal binding site [ion binding]; metal-binding site 1029825001989 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 1029825001990 dsRNA binding site [nucleotide binding]; other site 1029825001991 GTPase Era; Reviewed; Region: era; PRK00089 1029825001992 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1029825001993 G1 box; other site 1029825001994 GTP/Mg2+ binding site [chemical binding]; other site 1029825001995 Switch I region; other site 1029825001996 G2 box; other site 1029825001997 Switch II region; other site 1029825001998 G3 box; other site 1029825001999 G4 box; other site 1029825002000 G5 box; other site 1029825002001 KH domain; Region: KH_2; pfam07650 1029825002002 Recombination protein O N terminal; Region: RecO_N; pfam11967 1029825002003 DNA repair protein RecO; Region: reco; TIGR00613 1029825002004 Recombination protein O C terminal; Region: RecO_C; pfam02565 1029825002005 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 1029825002006 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1029825002007 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1029825002008 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1029825002009 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1029825002010 dihydroorotase; Validated; Region: PRK09060 1029825002011 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 1029825002012 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 1029825002013 active site 1029825002014 Predicted secreted protein [Function unknown]; Region: COG5451 1029825002015 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1029825002016 nudix motif; other site 1029825002017 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1029825002018 Lysine efflux permease [General function prediction only]; Region: COG1279 1029825002019 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1029825002020 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029825002021 active site 1029825002022 HIGH motif; other site 1029825002023 nucleotide binding site [chemical binding]; other site 1029825002024 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1029825002025 KMSKS motif; other site 1029825002026 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1029825002027 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1029825002028 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1029825002029 active site 1029825002030 catalytic residues [active] 1029825002031 metal binding site [ion binding]; metal-binding site 1029825002032 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1029825002033 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1029825002034 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1029825002035 Peptidase family M23; Region: Peptidase_M23; pfam01551 1029825002036 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1029825002037 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 1029825002038 S-adenosylmethionine binding site [chemical binding]; other site 1029825002039 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 1029825002040 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1029825002041 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1029825002042 SurA N-terminal domain; Region: SurA_N; pfam09312 1029825002043 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1029825002044 OstA-like protein; Region: OstA; cl00844 1029825002045 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1029825002046 Predicted permeases [General function prediction only]; Region: COG0795 1029825002047 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1029825002048 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1029825002049 Predicted permeases [General function prediction only]; Region: COG0795 1029825002050 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1029825002051 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 1029825002052 interface (dimer of trimers) [polypeptide binding]; other site 1029825002053 Substrate-binding/catalytic site; other site 1029825002054 Zn-binding sites [ion binding]; other site 1029825002055 DNA polymerase III subunit chi; Validated; Region: PRK05728 1029825002056 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1029825002057 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825002058 Walker A/P-loop; other site 1029825002059 ATP binding site [chemical binding]; other site 1029825002060 Q-loop/lid; other site 1029825002061 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1029825002062 ABC transporter signature motif; other site 1029825002063 Walker B; other site 1029825002064 D-loop; other site 1029825002065 ABC transporter; Region: ABC_tran_2; pfam12848 1029825002066 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1029825002067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 1029825002068 DinB superfamily; Region: DinB_2; pfam12867 1029825002069 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 1029825002070 active site 1029825002071 multimer interface [polypeptide binding]; other site 1029825002072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1029825002073 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1029825002074 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 1029825002075 MoaE homodimer interface [polypeptide binding]; other site 1029825002076 MoaD interaction [polypeptide binding]; other site 1029825002077 active site residues [active] 1029825002078 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1029825002079 MoaE interaction surface [polypeptide binding]; other site 1029825002080 MoeB interaction surface [polypeptide binding]; other site 1029825002081 thiocarboxylated glycine; other site 1029825002082 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1029825002083 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1029825002084 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1029825002085 GIY-YIG motif/motif A; other site 1029825002086 active site 1029825002087 catalytic site [active] 1029825002088 putative DNA binding site [nucleotide binding]; other site 1029825002089 metal binding site [ion binding]; metal-binding site 1029825002090 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1029825002091 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1029825002092 short chain dehydrogenase; Provisional; Region: PRK09134 1029825002093 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1029825002094 NADP binding site [chemical binding]; other site 1029825002095 substrate binding pocket [chemical binding]; other site 1029825002096 active site 1029825002097 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1029825002098 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1029825002099 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 1029825002100 putative C-terminal domain interface [polypeptide binding]; other site 1029825002101 putative GSH binding site (G-site) [chemical binding]; other site 1029825002102 putative dimer interface [polypeptide binding]; other site 1029825002103 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1029825002104 dimer interface [polypeptide binding]; other site 1029825002105 N-terminal domain interface [polypeptide binding]; other site 1029825002106 putative substrate binding pocket (H-site) [chemical binding]; other site 1029825002107 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 1029825002108 B1 nucleotide binding pocket [chemical binding]; other site 1029825002109 B2 nucleotide binding pocket [chemical binding]; other site 1029825002110 CAS motifs; other site 1029825002111 active site 1029825002112 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1029825002113 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1029825002114 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1029825002115 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1029825002116 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1029825002117 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 1029825002118 putative [4Fe-4S] binding site [ion binding]; other site 1029825002119 putative molybdopterin cofactor binding site [chemical binding]; other site 1029825002120 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 1029825002121 putative molybdopterin cofactor binding site; other site 1029825002122 Protein of unknown function (DUF992); Region: DUF992; pfam06186 1029825002123 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1029825002124 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1029825002125 active site 1029825002126 substrate binding site [chemical binding]; other site 1029825002127 cosubstrate binding site; other site 1029825002128 catalytic site [active] 1029825002129 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1029825002130 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 1029825002131 dimerization interface [polypeptide binding]; other site 1029825002132 putative ATP binding site [chemical binding]; other site 1029825002133 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1029825002134 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1029825002135 hypothetical protein; Validated; Region: PRK09087 1029825002136 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1029825002137 Walker A motif; other site 1029825002138 ATP binding site [chemical binding]; other site 1029825002139 Walker B motif; other site 1029825002140 arginine finger; other site 1029825002141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029825002142 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1029825002143 NAD(P) binding site [chemical binding]; other site 1029825002144 active site 1029825002145 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1029825002146 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1029825002147 putative NAD(P) binding site [chemical binding]; other site 1029825002148 putative active site [active] 1029825002149 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1029825002150 L-lactate permease; Region: Lactate_perm; cl00701 1029825002151 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1029825002152 L-lactate permease; Region: Lactate_perm; cl00701 1029825002153 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 1029825002154 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1029825002155 active site 1029825002156 catalytic site [active] 1029825002157 substrate binding site [chemical binding]; other site 1029825002158 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825002159 Archaeal adenylate kinase [Nucleotide transport and metabolism]; Region: AdkA; COG2019 1029825002160 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1029825002161 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 1029825002162 non-specific DNA binding site [nucleotide binding]; other site 1029825002163 salt bridge; other site 1029825002164 sequence-specific DNA binding site [nucleotide binding]; other site 1029825002165 Uncharacterized conserved protein [Function unknown]; Region: COG4933 1029825002166 Integrase core domain; Region: rve; pfam00665 1029825002167 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1029825002168 potential frameshift: common BLAST hit: gi|376280410|ref|YP_005154416.1| transposition protein 1029825002169 AAA ATPase domain; Region: AAA_16; pfam13191 1029825002170 AAA domain; Region: AAA_22; pfam13401 1029825002171 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1029825002172 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]; Region: COG4916 1029825002173 TIR domain; Region: TIR_2; pfam13676 1029825002174 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1029825002175 Bacterial SH3 domain; Region: SH3_3; pfam08239 1029825002176 cystathionine beta-lyase; Provisional; Region: PRK05967 1029825002177 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 1029825002178 homodimer interface [polypeptide binding]; other site 1029825002179 substrate-cofactor binding pocket; other site 1029825002180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825002181 catalytic residue [active] 1029825002182 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1029825002183 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1029825002184 active site 1029825002185 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1029825002186 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 1029825002187 substrate binding pocket [chemical binding]; other site 1029825002188 membrane-bound complex binding site; other site 1029825002189 hinge residues; other site 1029825002190 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1029825002191 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 1029825002192 conserved gate region; other site 1029825002193 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 1029825002194 putative PBP binding loops; other site 1029825002195 dimer interface [polypeptide binding]; other site 1029825002196 ABC-ATPase subunit interface; other site 1029825002197 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1029825002198 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 1029825002199 dimer interface [polypeptide binding]; other site 1029825002200 conserved gate region; other site 1029825002201 putative PBP binding loops; other site 1029825002202 ABC-ATPase subunit interface; other site 1029825002203 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1029825002204 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1029825002205 Walker A/P-loop; other site 1029825002206 ATP binding site [chemical binding]; other site 1029825002207 Q-loop/lid; other site 1029825002208 ABC transporter signature motif; other site 1029825002209 Walker B; other site 1029825002210 D-loop; other site 1029825002211 H-loop/switch region; other site 1029825002212 salicylate hydroxylase; Provisional; Region: PRK06475 1029825002213 salicylate hydroxylase; Provisional; Region: PRK08163 1029825002214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 1029825002215 polyphosphate kinase; Provisional; Region: PRK05443 1029825002216 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1029825002217 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1029825002218 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1029825002219 putative domain interface [polypeptide binding]; other site 1029825002220 putative active site [active] 1029825002221 catalytic site [active] 1029825002222 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1029825002223 putative domain interface [polypeptide binding]; other site 1029825002224 putative active site [active] 1029825002225 catalytic site [active] 1029825002226 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1029825002227 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1029825002228 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1029825002229 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1029825002230 catalytic site [active] 1029825002231 putative active site [active] 1029825002232 putative substrate binding site [chemical binding]; other site 1029825002233 HRDC domain; Region: HRDC; pfam00570 1029825002234 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1029825002235 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 1029825002236 dimer interface [polypeptide binding]; other site 1029825002237 anticodon binding site; other site 1029825002238 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 1029825002239 homodimer interface [polypeptide binding]; other site 1029825002240 motif 1; other site 1029825002241 active site 1029825002242 motif 2; other site 1029825002243 GAD domain; Region: GAD; pfam02938 1029825002244 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 1029825002245 active site 1029825002246 motif 3; other site 1029825002247 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1029825002248 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 1029825002249 CAP-like domain; other site 1029825002250 active site 1029825002251 primary dimer interface [polypeptide binding]; other site 1029825002252 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1029825002253 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 1029825002254 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1029825002255 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1029825002256 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1029825002257 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 1029825002258 dimer interface [polypeptide binding]; other site 1029825002259 allosteric magnesium binding site [ion binding]; other site 1029825002260 active site 1029825002261 aspartate-rich active site metal binding site; other site 1029825002262 Schiff base residues; other site 1029825002263 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1029825002264 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 1029825002265 substrate binding site [chemical binding]; other site 1029825002266 oxyanion hole (OAH) forming residues; other site 1029825002267 trimer interface [polypeptide binding]; other site 1029825002268 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1029825002269 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1029825002270 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1029825002271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1029825002272 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1029825002273 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1029825002274 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1029825002275 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1029825002276 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 1029825002277 dimer interface [polypeptide binding]; other site 1029825002278 active site 1029825002279 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1029825002280 folate binding site [chemical binding]; other site 1029825002281 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1029825002282 ATP cone domain; Region: ATP-cone; pfam03477 1029825002283 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1029825002284 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 1029825002285 catalytic motif [active] 1029825002286 Zn binding site [ion binding]; other site 1029825002287 RibD C-terminal domain; Region: RibD_C; cl17279 1029825002288 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1029825002289 Lumazine binding domain; Region: Lum_binding; pfam00677 1029825002290 Lumazine binding domain; Region: Lum_binding; pfam00677 1029825002291 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 1029825002292 homopentamer interface [polypeptide binding]; other site 1029825002293 active site 1029825002294 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1029825002295 putative RNA binding site [nucleotide binding]; other site 1029825002296 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 1029825002297 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1029825002298 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1029825002299 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1029825002300 Uncharacterized conserved protein [Function unknown]; Region: COG5452 1029825002301 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1029825002302 putative phosphate acyltransferase; Provisional; Region: PRK05331 1029825002303 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1029825002304 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 1029825002305 dimer interface [polypeptide binding]; other site 1029825002306 active site 1029825002307 CoA binding pocket [chemical binding]; other site 1029825002308 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 1029825002309 IHF dimer interface [polypeptide binding]; other site 1029825002310 IHF - DNA interface [nucleotide binding]; other site 1029825002311 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1029825002312 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1029825002313 DNA binding residues [nucleotide binding] 1029825002314 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1029825002315 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1029825002316 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1029825002317 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1029825002318 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1029825002319 SLBB domain; Region: SLBB; pfam10531 1029825002320 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1029825002321 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 1029825002322 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1029825002323 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 1029825002324 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1029825002325 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1029825002326 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1029825002327 oligomer interface [polypeptide binding]; other site 1029825002328 putative active site [active] 1029825002329 Mn binding site [ion binding]; other site 1029825002330 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1029825002331 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 1029825002332 23S rRNA interface [nucleotide binding]; other site 1029825002333 L3 interface [polypeptide binding]; other site 1029825002334 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 1029825002335 CoenzymeA binding site [chemical binding]; other site 1029825002336 subunit interaction site [polypeptide binding]; other site 1029825002337 PHB binding site; other site 1029825002338 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 1029825002339 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 1029825002340 homodimer interface [polypeptide binding]; other site 1029825002341 substrate-cofactor binding pocket; other site 1029825002342 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825002343 catalytic residue [active] 1029825002344 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825002345 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1029825002346 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1029825002347 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1029825002348 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1029825002349 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1029825002350 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1029825002351 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1029825002352 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 1029825002353 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1029825002354 putative dimer interface [polypeptide binding]; other site 1029825002355 [2Fe-2S] cluster binding site [ion binding]; other site 1029825002356 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1029825002357 SLBB domain; Region: SLBB; pfam10531 1029825002358 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1029825002359 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1029825002360 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 1029825002361 catalytic loop [active] 1029825002362 iron binding site [ion binding]; other site 1029825002363 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1029825002364 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 1029825002365 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1029825002366 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1029825002367 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1029825002368 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1029825002369 4Fe-4S binding domain; Region: Fer4; pfam00037 1029825002370 4Fe-4S binding domain; Region: Fer4; pfam00037 1029825002371 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1029825002372 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1029825002373 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1029825002374 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1029825002375 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1029825002376 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1029825002377 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1029825002378 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1029825002379 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1029825002380 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1029825002381 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1029825002382 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1029825002383 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1029825002384 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1029825002385 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1029825002386 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1029825002387 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029825002388 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1029825002389 dimer interface [polypeptide binding]; other site 1029825002390 substrate binding site [chemical binding]; other site 1029825002391 metal binding site [ion binding]; metal-binding site 1029825002392 Predicted secreted protein [Function unknown]; Region: COG5454 1029825002393 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1029825002394 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 1029825002395 dimer interface [polypeptide binding]; other site 1029825002396 motif 1; other site 1029825002397 active site 1029825002398 motif 2; other site 1029825002399 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 1029825002400 active site 1029825002401 motif 3; other site 1029825002402 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 1029825002403 anticodon binding site; other site 1029825002404 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1029825002405 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1029825002406 FtsX-like permease family; Region: FtsX; pfam02687 1029825002407 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1029825002408 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1029825002409 Walker A/P-loop; other site 1029825002410 ATP binding site [chemical binding]; other site 1029825002411 Q-loop/lid; other site 1029825002412 ABC transporter signature motif; other site 1029825002413 Walker B; other site 1029825002414 D-loop; other site 1029825002415 H-loop/switch region; other site 1029825002416 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1029825002417 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1029825002418 putative active site [active] 1029825002419 putative PHP Thumb interface [polypeptide binding]; other site 1029825002420 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 1029825002421 generic binding surface II; other site 1029825002422 generic binding surface I; other site 1029825002423 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 1029825002424 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1029825002425 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1029825002426 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1029825002427 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 1029825002428 RNA binding surface [nucleotide binding]; other site 1029825002429 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1029825002430 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 1029825002431 Ligand Binding Site [chemical binding]; other site 1029825002432 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1029825002433 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 1029825002434 active site 1029825002435 putative lithium-binding site [ion binding]; other site 1029825002436 substrate binding site [chemical binding]; other site 1029825002437 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1029825002438 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 1029825002439 putative substrate translocation pore; other site 1029825002440 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 1029825002441 putative GSH binding site [chemical binding]; other site 1029825002442 catalytic residues [active] 1029825002443 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1029825002444 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1029825002445 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 1029825002446 dimerization interface [polypeptide binding]; other site 1029825002447 ATP binding site [chemical binding]; other site 1029825002448 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 1029825002449 dimerization interface [polypeptide binding]; other site 1029825002450 ATP binding site [chemical binding]; other site 1029825002451 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1029825002452 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1029825002453 C-terminal domain interface [polypeptide binding]; other site 1029825002454 GSH binding site (G-site) [chemical binding]; other site 1029825002455 dimer interface [polypeptide binding]; other site 1029825002456 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1029825002457 N-terminal domain interface [polypeptide binding]; other site 1029825002458 dimer interface [polypeptide binding]; other site 1029825002459 substrate binding pocket (H-site) [chemical binding]; other site 1029825002460 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1029825002461 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1029825002462 putative active site [active] 1029825002463 catalytic triad [active] 1029825002464 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1029825002465 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1029825002466 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1029825002467 ATP binding site [chemical binding]; other site 1029825002468 active site 1029825002469 substrate binding site [chemical binding]; other site 1029825002470 Uncharacterized conserved protein [Function unknown]; Region: COG5467 1029825002471 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1029825002472 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1029825002473 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1029825002474 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1029825002475 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_12; cd07255 1029825002476 putative metal binding site [ion binding]; other site 1029825002477 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1029825002478 active site 1029825002479 adenylosuccinate lyase; Provisional; Region: PRK07492 1029825002480 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1029825002481 tetramer interface [polypeptide binding]; other site 1029825002482 active site 1029825002483 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1029825002484 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 1029825002485 substrate binding site [chemical binding]; other site 1029825002486 hexamer interface [polypeptide binding]; other site 1029825002487 metal binding site [ion binding]; metal-binding site 1029825002488 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1029825002489 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1029825002490 putative acyl-acceptor binding pocket; other site 1029825002491 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1029825002492 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 1029825002493 putative NAD(P) binding site [chemical binding]; other site 1029825002494 structural Zn binding site [ion binding]; other site 1029825002495 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 1029825002496 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 1029825002497 dimer interface [polypeptide binding]; other site 1029825002498 active site 1029825002499 potential frameshift: common BLAST hit: gi|376280534|ref|YP_005154540.1| 3-oxoacyl-(acyl carrier protein) synthase II 1029825002500 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 1029825002501 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1029825002502 active site 1029825002503 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1029825002504 acyl carrier protein; Provisional; Region: PRK06508 1029825002505 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1029825002506 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1029825002507 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1029825002508 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1029825002509 active site 1029825002510 catalytic residues [active] 1029825002511 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1029825002512 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 1029825002513 substrate binding site [chemical binding]; other site 1029825002514 ATP binding site [chemical binding]; other site 1029825002515 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 1029825002516 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 1029825002517 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 1029825002518 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1029825002519 active site 1029825002520 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1029825002521 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 1029825002522 active site 1029825002523 motif I; other site 1029825002524 motif II; other site 1029825002525 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1029825002526 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 1029825002527 substrate binding pocket [chemical binding]; other site 1029825002528 membrane-bound complex binding site; other site 1029825002529 hinge residues; other site 1029825002530 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1029825002531 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 1029825002532 FMN binding site [chemical binding]; other site 1029825002533 active site 1029825002534 catalytic residues [active] 1029825002535 substrate binding site [chemical binding]; other site 1029825002536 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1029825002537 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1029825002538 catalytic motif [active] 1029825002539 Catalytic residue [active] 1029825002540 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1029825002541 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1029825002542 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1029825002543 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1029825002544 putative dimer interface [polypeptide binding]; other site 1029825002545 active site pocket [active] 1029825002546 putative cataytic base [active] 1029825002547 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1029825002548 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 1029825002549 putative DNA binding site [nucleotide binding]; other site 1029825002550 putative Zn2+ binding site [ion binding]; other site 1029825002551 AsnC family; Region: AsnC_trans_reg; pfam01037 1029825002552 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1029825002553 putative uracil binding site [chemical binding]; other site 1029825002554 putative active site [active] 1029825002555 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1029825002556 Sel1-like repeats; Region: SEL1; smart00671 1029825002557 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 1029825002558 putative catalytic site [active] 1029825002559 putative phosphate binding site [ion binding]; other site 1029825002560 active site 1029825002561 metal binding site A [ion binding]; metal-binding site 1029825002562 DNA binding site [nucleotide binding] 1029825002563 putative AP binding site [nucleotide binding]; other site 1029825002564 putative metal binding site B [ion binding]; other site 1029825002565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 1029825002566 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1029825002567 putative metal binding site [ion binding]; other site 1029825002568 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1029825002569 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1029825002570 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1029825002571 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1029825002572 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1029825002573 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1029825002574 active site 1029825002575 HIGH motif; other site 1029825002576 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029825002577 KMSK motif region; other site 1029825002578 tRNA binding surface [nucleotide binding]; other site 1029825002579 DALR anticodon binding domain; Region: DALR_1; smart00836 1029825002580 anticodon binding site; other site 1029825002581 Sporulation related domain; Region: SPOR; pfam05036 1029825002582 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1029825002583 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1029825002584 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1029825002585 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 1029825002586 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 1029825002587 sec-independent translocase; Provisional; Region: PRK00708 1029825002588 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1029825002589 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1029825002590 seryl-tRNA synthetase; Provisional; Region: PRK05431 1029825002591 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1029825002592 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 1029825002593 dimer interface [polypeptide binding]; other site 1029825002594 active site 1029825002595 motif 1; other site 1029825002596 motif 2; other site 1029825002597 motif 3; other site 1029825002598 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1029825002599 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1029825002600 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 1029825002601 S-adenosylmethionine binding site [chemical binding]; other site 1029825002602 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1029825002603 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1029825002604 Peptidase family M23; Region: Peptidase_M23; pfam01551 1029825002605 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1029825002606 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 1029825002607 Walker A motif; other site 1029825002608 ATP binding site [chemical binding]; other site 1029825002609 Walker B motif; other site 1029825002610 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 1029825002611 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13023 1029825002612 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1029825002613 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1029825002614 Protein export membrane protein; Region: SecD_SecF; pfam02355 1029825002615 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 1029825002616 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 1029825002617 substrate binding pocket [chemical binding]; other site 1029825002618 substrate-Mg2+ binding site; other site 1029825002619 aspartate-rich region 1; other site 1029825002620 aspartate-rich region 2; other site 1029825002621 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1029825002622 Glucose inhibited division protein A; Region: GIDA; pfam01134 1029825002623 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1029825002624 Predicted membrane protein [Function unknown]; Region: COG4872 1029825002625 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 1029825002626 trigger factor; Provisional; Region: tig; PRK01490 1029825002627 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1029825002628 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1029825002629 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1029825002630 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1029825002631 GatB domain; Region: GatB_Yqey; smart00845 1029825002632 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1029825002633 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1029825002634 Coenzyme A binding pocket [chemical binding]; other site 1029825002635 NADH dehydrogenase; Validated; Region: PRK08183 1029825002636 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1029825002637 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1029825002638 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1029825002639 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1029825002640 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1029825002641 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1029825002642 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 1029825002643 carboxyltransferase (CT) interaction site; other site 1029825002644 biotinylation site [posttranslational modification]; other site 1029825002645 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1029825002646 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 1029825002647 trimer interface [polypeptide binding]; other site 1029825002648 active site 1029825002649 dimer interface [polypeptide binding]; other site 1029825002650 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1029825002651 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1029825002652 catalytic residues [active] 1029825002653 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1029825002654 Peptidase family M48; Region: Peptidase_M48; cl12018 1029825002655 aspartate aminotransferase; Provisional; Region: PRK05764 1029825002656 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 1029825002657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825002658 homodimer interface [polypeptide binding]; other site 1029825002659 catalytic residue [active] 1029825002660 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 1029825002661 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 1029825002662 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1029825002663 AMIN domain; Region: AMIN; pfam11741 1029825002664 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1029825002665 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 1029825002666 active site 1029825002667 metal binding site [ion binding]; metal-binding site 1029825002668 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1029825002669 Transglycosylase; Region: Transgly; pfam00912 1029825002670 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1029825002671 peptide chain release factor 2; Provisional; Region: PRK07342 1029825002672 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1029825002673 RF-1 domain; Region: RF-1; pfam00472 1029825002674 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825002675 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1029825002676 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1029825002677 dinuclear metal binding motif [ion binding]; other site 1029825002678 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1029825002679 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 1029825002680 catalytic triad [active] 1029825002681 AsmA family; Region: AsmA; pfam05170 1029825002682 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1029825002683 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1029825002684 active site 1029825002685 HIGH motif; other site 1029825002686 dimer interface [polypeptide binding]; other site 1029825002687 KMSKS motif; other site 1029825002688 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 1029825002689 RNA binding surface [nucleotide binding]; other site 1029825002690 Predicted molecular chaperone distantly related to HSP70-fold metalloproteases [Posttranslational modification, protein turnover, chaperones]; Region: COG2377 1029825002691 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1029825002692 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1029825002693 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1029825002694 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1029825002695 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029825002696 catalytic residue [active] 1029825002697 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1029825002698 putative ABC transporter; Region: ycf24; CHL00085 1029825002699 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1029825002700 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1029825002701 Walker A/P-loop; other site 1029825002702 ATP binding site [chemical binding]; other site 1029825002703 Q-loop/lid; other site 1029825002704 ABC transporter signature motif; other site 1029825002705 Walker B; other site 1029825002706 D-loop; other site 1029825002707 H-loop/switch region; other site 1029825002708 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1029825002709 FeS assembly protein SufD; Region: sufD; TIGR01981 1029825002710 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1029825002711 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 1029825002712 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029825002713 catalytic residue [active] 1029825002714 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1029825002715 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1029825002716 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 1029825002717 active site 1029825002718 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1029825002719 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1029825002720 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1029825002721 helicase 45; Provisional; Region: PTZ00424 1029825002722 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 1029825002723 ATP binding site [chemical binding]; other site 1029825002724 Mg++ binding site [ion binding]; other site 1029825002725 motif III; other site 1029825002726 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 1029825002727 nucleotide binding region [chemical binding]; other site 1029825002728 ATP-binding site [chemical binding]; other site 1029825002729 FeS assembly scaffold SufA; Region: sufA_proteo; TIGR01997 1029825002730 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1029825002731 metal-binding site [ion binding] 1029825002732 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1029825002733 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 1029825002734 S-adenosylmethionine binding site [chemical binding]; other site 1029825002735 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1029825002736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1029825002737 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1029825002738 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1029825002739 HIGH motif; other site 1029825002740 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1029825002741 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1029825002742 active site 1029825002743 KMSKS motif; other site 1029825002744 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1029825002745 tRNA binding surface [nucleotide binding]; other site 1029825002746 anticodon binding site; other site 1029825002747 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1029825002748 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1029825002749 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1029825002750 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1029825002751 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1029825002752 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1029825002753 putative N-terminal domain interface [polypeptide binding]; other site 1029825002754 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 1029825002755 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1029825002756 substrate binding pocket [chemical binding]; other site 1029825002757 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 1029825002758 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1029825002759 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1029825002760 GTP binding site; other site 1029825002761 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1029825002762 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 1029825002763 FeS/SAM binding site; other site 1029825002764 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1029825002765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1029825002766 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1029825002767 hypothetical protein; Provisional; Region: PRK06753 1029825002768 fumarate hydratase; Provisional; Region: PRK15389 1029825002769 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1029825002770 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1029825002771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1029825002772 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1029825002773 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 1029825002774 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1029825002775 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1029825002776 active site 1029825002777 Int/Topo IB signature motif; other site 1029825002778 catalytic residues [active] 1029825002779 DNA binding site [nucleotide binding] 1029825002780 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1029825002781 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 1029825002782 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 1029825002783 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1029825002784 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1029825002785 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825002786 Phage portal protein; Region: Phage_portal; pfam04860 1029825002787 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 1029825002788 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029825002789 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 1029825002790 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029825002791 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1029825002792 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1029825002793 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1029825002794 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 1029825002795 ArsC family; Region: ArsC; pfam03960 1029825002796 catalytic residues [active] 1029825002797 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1029825002798 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1029825002799 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1029825002800 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1029825002801 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1029825002802 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1029825002803 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 1029825002804 TMP-binding site; other site 1029825002805 ATP-binding site [chemical binding]; other site 1029825002806 DNA polymerase III subunit delta'; Validated; Region: PRK09112 1029825002807 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; cl17189 1029825002808 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1029825002809 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1029825002810 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1029825002811 active site 1029825002812 HIGH motif; other site 1029825002813 KMSKS motif; other site 1029825002814 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1029825002815 tRNA binding surface [nucleotide binding]; other site 1029825002816 anticodon binding site; other site 1029825002817 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1029825002818 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1029825002819 active site 1029825002820 putative hydrolase; Provisional; Region: PRK02113 1029825002821 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1029825002822 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 1029825002823 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1029825002824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825002825 Walker A/P-loop; other site 1029825002826 ATP binding site [chemical binding]; other site 1029825002827 Q-loop/lid; other site 1029825002828 ABC transporter signature motif; other site 1029825002829 Walker B; other site 1029825002830 D-loop; other site 1029825002831 H-loop/switch region; other site 1029825002832 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1029825002833 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1029825002834 active site 1029825002835 EamA-like transporter family; Region: EamA; pfam00892 1029825002836 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1029825002837 EamA-like transporter family; Region: EamA; pfam00892 1029825002838 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1029825002839 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 1029825002840 motif I; other site 1029825002841 active site 1029825002842 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 1029825002843 motif II; other site 1029825002844 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 1029825002845 glutamine synthetase; Provisional; Region: glnA; PRK09469 1029825002846 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1029825002847 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1029825002848 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1029825002849 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1029825002850 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1029825002851 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 1029825002852 putative substrate binding site [chemical binding]; other site 1029825002853 putative ATP binding site [chemical binding]; other site 1029825002854 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1029825002855 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 1029825002856 motif II; other site 1029825002857 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 1029825002858 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1029825002859 active site 1029825002860 dimer interface [polypeptide binding]; other site 1029825002861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 1029825002862 glutathione reductase; Validated; Region: PRK06116 1029825002863 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1029825002864 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029825002865 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1029825002866 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1029825002867 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1029825002868 NAD synthetase; Provisional; Region: PRK13981 1029825002869 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1029825002870 multimer interface [polypeptide binding]; other site 1029825002871 active site 1029825002872 catalytic triad [active] 1029825002873 protein interface 1 [polypeptide binding]; other site 1029825002874 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 1029825002875 homodimer interface [polypeptide binding]; other site 1029825002876 NAD binding pocket [chemical binding]; other site 1029825002877 ATP binding pocket [chemical binding]; other site 1029825002878 Mg binding site [ion binding]; other site 1029825002879 active-site loop [active] 1029825002880 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1029825002881 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029825002882 active site 1029825002883 HIGH motif; other site 1029825002884 nucleotide binding site [chemical binding]; other site 1029825002885 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1029825002886 active site 1029825002887 KMSKS motif; other site 1029825002888 malic enzyme; Reviewed; Region: PRK12862 1029825002889 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1029825002890 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1029825002891 putative NAD(P) binding site [chemical binding]; other site 1029825002892 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1029825002893 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 1029825002894 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1029825002895 active site 1029825002896 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1029825002897 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1029825002898 Permease; Region: Permease; pfam02405 1029825002899 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1029825002900 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1029825002901 Walker A/P-loop; other site 1029825002902 ATP binding site [chemical binding]; other site 1029825002903 Q-loop/lid; other site 1029825002904 ABC transporter signature motif; other site 1029825002905 Walker B; other site 1029825002906 D-loop; other site 1029825002907 H-loop/switch region; other site 1029825002908 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1029825002909 mce related protein; Region: MCE; pfam02470 1029825002910 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 1029825002911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1029825002912 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1029825002913 chromosome segregation protein; Provisional; Region: PRK02224 1029825002914 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1029825002915 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 1029825002916 catalytic loop [active] 1029825002917 iron binding site [ion binding]; other site 1029825002918 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1029825002919 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1029825002920 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5661 1029825002921 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 1029825002922 dihydropteroate synthase; Region: DHPS; TIGR01496 1029825002923 substrate binding pocket [chemical binding]; other site 1029825002924 dimer interface [polypeptide binding]; other site 1029825002925 inhibitor binding site; inhibition site 1029825002926 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 1029825002927 homooctamer interface [polypeptide binding]; other site 1029825002928 active site 1029825002929 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 1029825002930 catalytic center binding site [active] 1029825002931 ATP binding site [chemical binding]; other site 1029825002932 Predicted membrane protein [Function unknown]; Region: COG3768 1029825002933 Domain of unknown function (DUF697); Region: DUF697; cl12064 1029825002934 YcjX-like family, DUF463; Region: DUF463; cl01193 1029825002935 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 1029825002936 catalytic core [active] 1029825002937 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1029825002938 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1029825002939 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 1029825002940 PAS domain; Region: PAS_9; pfam13426 1029825002941 putative active site [active] 1029825002942 heme pocket [chemical binding]; other site 1029825002943 PAS domain; Region: PAS; smart00091 1029825002944 PAS fold; Region: PAS_4; pfam08448 1029825002945 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1029825002946 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 1029825002947 dimer interface [polypeptide binding]; other site 1029825002948 phosphorylation site [posttranslational modification] 1029825002949 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 1029825002950 ATP binding site [chemical binding]; other site 1029825002951 Mg2+ binding site [ion binding]; other site 1029825002952 G-X-G motif; other site 1029825002953 Response regulator receiver domain; Region: Response_reg; pfam00072 1029825002954 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 1029825002955 active site 1029825002956 phosphorylation site [posttranslational modification] 1029825002957 intermolecular recognition site; other site 1029825002958 dimerization interface [polypeptide binding]; other site 1029825002959 Predicted flavoproteins [General function prediction only]; Region: COG2081 1029825002960 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1029825002961 Beta-lactamase; Region: Beta-lactamase; pfam00144 1029825002962 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1029825002963 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1029825002964 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1029825002965 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 1029825002966 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1029825002967 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1029825002968 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1029825002969 active site 1029825002970 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1029825002971 TSCPD domain; Region: TSCPD; pfam12637 1029825002972 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_9; cd04666 1029825002973 nudix motif; other site 1029825002974 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029825002975 active site 1029825002976 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1029825002977 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 1029825002978 Ligand Binding Site [chemical binding]; other site 1029825002979 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1029825002980 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1029825002981 putative MPT binding site; other site 1029825002982 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1029825002983 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1029825002984 threonine dehydratase; Validated; Region: PRK08639 1029825002985 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 1029825002986 tetramer interface [polypeptide binding]; other site 1029825002987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825002988 catalytic residue [active] 1029825002989 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1029825002990 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 1029825002991 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1029825002992 ATP binding site [chemical binding]; other site 1029825002993 Mg++ binding site [ion binding]; other site 1029825002994 motif III; other site 1029825002995 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 1029825002996 nucleotide binding region [chemical binding]; other site 1029825002997 ATP-binding site [chemical binding]; other site 1029825002998 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1029825002999 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 1029825003000 dimer interface [polypeptide binding]; other site 1029825003001 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825003002 catalytic residue [active] 1029825003003 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1029825003004 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1029825003005 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1029825003006 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 1029825003007 active site residue [active] 1029825003008 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 1029825003009 active site residue [active] 1029825003010 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1029825003011 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1029825003012 Coenzyme A binding pocket [chemical binding]; other site 1029825003013 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1029825003014 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1029825003015 metal binding site [ion binding]; metal-binding site 1029825003016 active site 1029825003017 I-site; other site 1029825003018 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1029825003019 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1029825003020 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1029825003021 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 1029825003022 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1029825003023 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825003024 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1029825003025 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 1029825003026 putative NAD(P) binding site [chemical binding]; other site 1029825003027 putative substrate binding site [chemical binding]; other site 1029825003028 catalytic Zn binding site [ion binding]; other site 1029825003029 structural Zn binding site [ion binding]; other site 1029825003030 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1029825003031 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1029825003032 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 1029825003033 active site 1029825003034 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 1029825003035 Tetratricopeptide repeat; Region: TPR_1; pfam00515 1029825003036 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 1029825003037 S-adenosylmethionine binding site [chemical binding]; other site 1029825003038 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1029825003039 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1029825003040 UDP-glucose 4-epimerase; Region: PLN02240 1029825003041 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1029825003042 NAD binding site [chemical binding]; other site 1029825003043 homodimer interface [polypeptide binding]; other site 1029825003044 active site 1029825003045 substrate binding site [chemical binding]; other site 1029825003046 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1029825003047 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 1029825003048 homodimer interface [polypeptide binding]; other site 1029825003049 metal binding site [ion binding]; metal-binding site 1029825003050 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 1029825003051 homodimer interface [polypeptide binding]; other site 1029825003052 active site 1029825003053 putative chemical substrate binding site [chemical binding]; other site 1029825003054 metal binding site [ion binding]; metal-binding site 1029825003055 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1029825003056 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 1029825003057 putative FMN binding site [chemical binding]; other site 1029825003058 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1029825003059 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 1029825003060 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1029825003061 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 1029825003062 active site 1029825003063 dimer interface [polypeptide binding]; other site 1029825003064 motif 1; other site 1029825003065 motif 2; other site 1029825003066 motif 3; other site 1029825003067 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 1029825003068 anticodon binding site; other site 1029825003069 potential frameshift: common BLAST hit: gi|340790690|ref|YP_004756155.1| D-alanyl-D-alanine carboxypeptidase 1029825003070 Sporulation related domain; Region: SPOR; pfam05036 1029825003071 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1029825003072 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1029825003073 hypothetical protein; Validated; Region: PRK00041 1029825003074 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1029825003075 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1029825003076 trimerization site [polypeptide binding]; other site 1029825003077 active site 1029825003078 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 1029825003079 homodecamer interface [polypeptide binding]; other site 1029825003080 GTP cyclohydrolase I; Provisional; Region: PLN03044 1029825003081 active site 1029825003082 putative catalytic site residues [active] 1029825003083 zinc binding site [ion binding]; other site 1029825003084 GTP-CH-I/GFRP interaction surface; other site 1029825003085 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1029825003086 hypothetical protein; Provisional; Region: PRK10279 1029825003087 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1029825003088 nucleophile elbow; other site 1029825003089 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1029825003090 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 1029825003091 active site 1029825003092 DNA binding site [nucleotide binding] 1029825003093 Int/Topo IB signature motif; other site 1029825003094 Prophage antirepressor [Transcription]; Region: COG3617 1029825003095 BRO family, N-terminal domain; Region: Bro-N; smart01040 1029825003096 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1029825003097 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1029825003098 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1029825003099 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1029825003100 FAD binding site [chemical binding]; other site 1029825003101 substrate binding pocket [chemical binding]; other site 1029825003102 catalytic base [active] 1029825003103 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1029825003104 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825003105 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 1029825003106 dimerization interface [polypeptide binding]; other site 1029825003107 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1029825003108 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1029825003109 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1029825003110 multidrug efflux protein; Reviewed; Region: PRK09579 1029825003111 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1029825003112 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825003113 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825003114 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1029825003115 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1029825003116 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1029825003117 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1029825003118 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1029825003119 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1029825003120 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1029825003121 active site 1029825003122 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1029825003123 active site 1029825003124 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029825003125 active site 1029825003126 KMSKS motif; other site 1029825003127 DNA gyrase subunit A; Validated; Region: PRK05560 1029825003128 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 1029825003129 CAP-like domain; other site 1029825003130 active site 1029825003131 primary dimer interface [polypeptide binding]; other site 1029825003132 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1029825003133 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1029825003134 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1029825003135 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1029825003136 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1029825003137 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1029825003138 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 1029825003139 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 1029825003140 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825003141 DNA-binding site [nucleotide binding]; DNA binding site 1029825003142 UTRA domain; Region: UTRA; pfam07702 1029825003143 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1029825003144 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 1029825003145 dimer interface [polypeptide binding]; other site 1029825003146 ssDNA binding site [nucleotide binding]; other site 1029825003147 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1029825003148 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1029825003149 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1029825003150 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1029825003151 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1029825003152 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 1029825003153 IHF dimer interface [polypeptide binding]; other site 1029825003154 IHF - DNA interface [nucleotide binding]; other site 1029825003155 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1029825003156 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1029825003157 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 1029825003158 Walker A motif; other site 1029825003159 ATP binding site [chemical binding]; other site 1029825003160 Walker B motif; other site 1029825003161 arginine finger; other site 1029825003162 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1029825003163 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1029825003164 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1029825003165 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 1029825003166 Walker A motif; other site 1029825003167 ATP binding site [chemical binding]; other site 1029825003168 Walker B motif; other site 1029825003169 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1029825003170 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1029825003171 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1029825003172 oligomer interface [polypeptide binding]; other site 1029825003173 active site residues [active] 1029825003174 GTPases [General function prediction only]; Region: HflX; COG2262 1029825003175 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1029825003176 HflX GTPase family; Region: HflX; cd01878 1029825003177 G1 box; other site 1029825003178 GTP/Mg2+ binding site [chemical binding]; other site 1029825003179 Switch I region; other site 1029825003180 G2 box; other site 1029825003181 G3 box; other site 1029825003182 Switch II region; other site 1029825003183 G4 box; other site 1029825003184 G5 box; other site 1029825003185 bacterial Hfq-like; Region: Hfq; cd01716 1029825003186 hexamer interface [polypeptide binding]; other site 1029825003187 Sm1 motif; other site 1029825003188 RNA binding site [nucleotide binding]; other site 1029825003189 Sm2 motif; other site 1029825003190 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1029825003191 TrkA-N domain; Region: TrkA_N; pfam02254 1029825003192 TrkA-C domain; Region: TrkA_C; pfam02080 1029825003193 TrkA-N domain; Region: TrkA_N; pfam02254 1029825003194 TrkA-C domain; Region: TrkA_C; pfam02080 1029825003195 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1029825003196 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 1029825003197 active site 1029825003198 phosphorylation site [posttranslational modification] 1029825003199 intermolecular recognition site; other site 1029825003200 dimerization interface [polypeptide binding]; other site 1029825003201 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 1029825003202 Walker A motif; other site 1029825003203 ATP binding site [chemical binding]; other site 1029825003204 Walker B motif; other site 1029825003205 arginine finger; other site 1029825003206 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1029825003207 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1029825003208 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 1029825003209 dimerization interface [polypeptide binding]; other site 1029825003210 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 1029825003211 dimer interface [polypeptide binding]; other site 1029825003212 phosphorylation site [posttranslational modification] 1029825003213 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 1029825003214 ATP binding site [chemical binding]; other site 1029825003215 Mg2+ binding site [ion binding]; other site 1029825003216 G-X-G motif; other site 1029825003217 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1029825003218 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 1029825003219 active site 1029825003220 phosphorylation site [posttranslational modification] 1029825003221 intermolecular recognition site; other site 1029825003222 dimerization interface [polypeptide binding]; other site 1029825003223 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 1029825003224 Walker A motif; other site 1029825003225 ATP binding site [chemical binding]; other site 1029825003226 Walker B motif; other site 1029825003227 arginine finger; other site 1029825003228 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1029825003229 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1029825003230 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 1029825003231 dimer interface [polypeptide binding]; other site 1029825003232 phosphorylation site [posttranslational modification] 1029825003233 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 1029825003234 ATP binding site [chemical binding]; other site 1029825003235 Mg2+ binding site [ion binding]; other site 1029825003236 G-X-G motif; other site 1029825003237 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1029825003238 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 1029825003239 FMN binding site [chemical binding]; other site 1029825003240 active site 1029825003241 catalytic residues [active] 1029825003242 substrate binding site [chemical binding]; other site 1029825003243 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1029825003244 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1029825003245 substrate binding site; other site 1029825003246 dimer interface; other site 1029825003247 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 1029825003248 homotrimer interaction site [polypeptide binding]; other site 1029825003249 zinc binding site [ion binding]; other site 1029825003250 CDP-binding sites; other site 1029825003251 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1029825003252 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1029825003253 classical (c) SDRs; Region: SDR_c; cd05233 1029825003254 NAD(P) binding site [chemical binding]; other site 1029825003255 active site 1029825003256 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1029825003257 putative coenzyme Q binding site [chemical binding]; other site 1029825003258 lipoyl synthase; Provisional; Region: PRK05481 1029825003259 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 1029825003260 FeS/SAM binding site; other site 1029825003261 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1029825003262 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1029825003263 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029825003264 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1029825003265 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 1029825003266 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1029825003267 E3 interaction surface; other site 1029825003268 lipoyl attachment site [posttranslational modification]; other site 1029825003269 e3 binding domain; Region: E3_binding; pfam02817 1029825003270 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1029825003271 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 1029825003272 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 1029825003273 E3 interaction surface; other site 1029825003274 lipoyl attachment site [posttranslational modification]; other site 1029825003275 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1029825003276 alpha subunit interface [polypeptide binding]; other site 1029825003277 TPP binding site [chemical binding]; other site 1029825003278 heterodimer interface [polypeptide binding]; other site 1029825003279 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1029825003280 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1029825003281 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1029825003282 tetramer interface [polypeptide binding]; other site 1029825003283 TPP-binding site [chemical binding]; other site 1029825003284 heterodimer interface [polypeptide binding]; other site 1029825003285 phosphorylation loop region [posttranslational modification] 1029825003286 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1029825003287 Septum formation initiator; Region: DivIC; pfam04977 1029825003288 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1029825003289 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 1029825003290 S-adenosylmethionine binding site [chemical binding]; other site 1029825003291 enolase; Provisional; Region: eno; PRK00077 1029825003292 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 1029825003293 dimer interface [polypeptide binding]; other site 1029825003294 metal binding site [ion binding]; metal-binding site 1029825003295 substrate binding pocket [chemical binding]; other site 1029825003296 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1029825003297 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1029825003298 CTP synthetase; Validated; Region: pyrG; PRK05380 1029825003299 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 1029825003300 Catalytic site [active] 1029825003301 active site 1029825003302 UTP binding site [chemical binding]; other site 1029825003303 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1029825003304 active site 1029825003305 putative oxyanion hole; other site 1029825003306 catalytic triad [active] 1029825003307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1029825003308 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1029825003309 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1029825003310 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 1029825003311 triosephosphate isomerase; Provisional; Region: PRK14565 1029825003312 substrate binding site [chemical binding]; other site 1029825003313 dimer interface [polypeptide binding]; other site 1029825003314 catalytic triad [active] 1029825003315 SurA N-terminal domain; Region: SurA_N_3; cl07813 1029825003316 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1029825003317 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1029825003318 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1029825003319 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1029825003320 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1029825003321 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 1029825003322 active site 1029825003323 ribulose/triose binding site [chemical binding]; other site 1029825003324 phosphate binding site [ion binding]; other site 1029825003325 substrate (anthranilate) binding pocket [chemical binding]; other site 1029825003326 product (indole) binding pocket [chemical binding]; other site 1029825003327 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 1029825003328 trimer interface [polypeptide binding]; other site 1029825003329 dimer interface [polypeptide binding]; other site 1029825003330 putative active site [active] 1029825003331 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1029825003332 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 1029825003333 dimer interface [polypeptide binding]; other site 1029825003334 putative functional site; other site 1029825003335 putative MPT binding site; other site 1029825003336 LexA repressor; Validated; Region: PRK00215 1029825003337 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1029825003338 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 1029825003339 Catalytic site [active] 1029825003340 Competence protein; Region: Competence; pfam03772 1029825003341 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1029825003342 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1029825003343 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1029825003344 active site 1029825003345 KMSKS motif; other site 1029825003346 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 1029825003347 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1029825003348 dimer interface [polypeptide binding]; other site 1029825003349 active site 1029825003350 citrylCoA binding site [chemical binding]; other site 1029825003351 NADH binding [chemical binding]; other site 1029825003352 cationic pore residues; other site 1029825003353 oxalacetate/citrate binding site [chemical binding]; other site 1029825003354 coenzyme A binding site [chemical binding]; other site 1029825003355 catalytic triad [active] 1029825003356 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 1029825003357 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1029825003358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1029825003359 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1029825003360 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 1029825003361 active site 1029825003362 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 1029825003363 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1029825003364 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1029825003365 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 1029825003366 trimer interface [polypeptide binding]; other site 1029825003367 active site 1029825003368 UDP-GlcNAc binding site [chemical binding]; other site 1029825003369 lipid binding site [chemical binding]; lipid-binding site 1029825003370 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1029825003371 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1029825003372 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1029825003373 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1029825003374 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1029825003375 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1029825003376 Surface antigen; Region: Bac_surface_Ag; pfam01103 1029825003377 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1029825003378 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 1029825003379 active site 1029825003380 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 1029825003381 protein binding site [polypeptide binding]; other site 1029825003382 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 1029825003383 putative substrate binding region [chemical binding]; other site 1029825003384 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1029825003385 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1029825003386 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 1029825003387 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1029825003388 catalytic residue [active] 1029825003389 putative FPP diphosphate binding site; other site 1029825003390 putative FPP binding hydrophobic cleft; other site 1029825003391 dimer interface [polypeptide binding]; other site 1029825003392 putative IPP diphosphate binding site; other site 1029825003393 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1029825003394 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 1029825003395 hinge region; other site 1029825003396 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 1029825003397 putative nucleotide binding site [chemical binding]; other site 1029825003398 uridine monophosphate binding site [chemical binding]; other site 1029825003399 homohexameric interface [polypeptide binding]; other site 1029825003400 elongation factor Ts; Provisional; Region: tsf; PRK09377 1029825003401 UBA/TS-N domain; Region: UBA; pfam00627 1029825003402 Elongation factor TS; Region: EF_TS; pfam00889 1029825003403 Elongation factor TS; Region: EF_TS; pfam00889 1029825003404 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 1029825003405 rRNA interaction site [nucleotide binding]; other site 1029825003406 S8 interaction site; other site 1029825003407 putative laminin-1 binding site; other site 1029825003408 Uncharacterized protein conserved in bacteria with a cystatin-like fold [Function unknown]; Region: COG4875 1029825003409 SnoaL-like domain; Region: SnoaL_3; pfam13474 1029825003410 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 1029825003411 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_1; cd02199 1029825003412 homotrimer interaction site [polypeptide binding]; other site 1029825003413 putative active site [active] 1029825003414 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 1029825003415 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1029825003416 putative active site [active] 1029825003417 catalytic site [active] 1029825003418 putative metal binding site [ion binding]; other site 1029825003419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 1029825003420 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1029825003421 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1029825003422 HIT family signature motif; other site 1029825003423 catalytic residue [active] 1029825003424 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1029825003425 Clp amino terminal domain; Region: Clp_N; pfam02861 1029825003426 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 1029825003427 Walker A motif; other site 1029825003428 ATP binding site [chemical binding]; other site 1029825003429 Walker B motif; other site 1029825003430 arginine finger; other site 1029825003431 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 1029825003432 Walker A motif; other site 1029825003433 ATP binding site [chemical binding]; other site 1029825003434 Walker B motif; other site 1029825003435 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1029825003436 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1029825003437 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1029825003438 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1029825003439 Sporulation related domain; Region: SPOR; pfam05036 1029825003440 Uncharacterized conserved protein [Function unknown]; Region: COG5458 1029825003441 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1029825003442 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1029825003443 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1029825003444 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1029825003445 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 1029825003446 putative active site [active] 1029825003447 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 1029825003448 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1029825003449 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1029825003450 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1029825003451 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1029825003452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1029825003453 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1029825003454 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 1029825003455 non-specific DNA binding site [nucleotide binding]; other site 1029825003456 salt bridge; other site 1029825003457 sequence-specific DNA binding site [nucleotide binding]; other site 1029825003458 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1029825003459 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1029825003460 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1029825003461 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1029825003462 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1029825003463 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1029825003464 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1029825003465 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1029825003466 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1029825003467 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1029825003468 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 1029825003469 carboxyltransferase (CT) interaction site; other site 1029825003470 biotinylation site [posttranslational modification]; other site 1029825003471 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1029825003472 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 1029825003473 active site 1029825003474 substrate binding site [chemical binding]; other site 1029825003475 coenzyme B12 binding site [chemical binding]; other site 1029825003476 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1029825003477 B12 binding site [chemical binding]; other site 1029825003478 cobalt ligand [ion binding]; other site 1029825003479 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1029825003480 DctM-like transporters; Region: DctM; pfam06808 1029825003481 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1029825003482 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1029825003483 glutamate racemase; Provisional; Region: PRK00865 1029825003484 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1029825003485 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1029825003486 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1029825003487 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1029825003488 conserved cys residue [active] 1029825003489 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1029825003490 isocitrate dehydrogenase; Validated; Region: PRK08299 1029825003491 alkaline phosphatase; Provisional; Region: PRK10518 1029825003492 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1029825003493 dimer interface [polypeptide binding]; other site 1029825003494 active site 1029825003495 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1029825003496 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 1029825003497 motif 1; other site 1029825003498 active site 1029825003499 motif 2; other site 1029825003500 motif 3; other site 1029825003501 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1029825003502 recombinase A; Provisional; Region: recA; PRK09354 1029825003503 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 1029825003504 hexamer interface [polypeptide binding]; other site 1029825003505 Walker A motif; other site 1029825003506 ATP binding site [chemical binding]; other site 1029825003507 Walker B motif; other site 1029825003508 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1029825003509 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1029825003510 ligand binding site [chemical binding]; other site 1029825003511 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 1029825003512 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1029825003513 catalytic residue [active] 1029825003514 recombination factor protein RarA; Reviewed; Region: PRK13342 1029825003515 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 1029825003516 Walker A motif; other site 1029825003517 ATP binding site [chemical binding]; other site 1029825003518 Walker B motif; other site 1029825003519 arginine finger; other site 1029825003520 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1029825003521 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1029825003522 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1029825003523 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 1029825003524 protein binding site [polypeptide binding]; other site 1029825003525 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 1029825003526 protein binding site [polypeptide binding]; other site 1029825003527 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1029825003528 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1029825003529 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1029825003530 alphaNTD homodimer interface [polypeptide binding]; other site 1029825003531 alphaNTD - beta interaction site [polypeptide binding]; other site 1029825003532 alphaNTD - beta' interaction site [polypeptide binding]; other site 1029825003533 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1029825003534 30S ribosomal protein S11; Validated; Region: PRK05309 1029825003535 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1029825003536 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1029825003537 adenylate kinase; Reviewed; Region: adk; PRK00279 1029825003538 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 1029825003539 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1029825003540 AMP-binding site [chemical binding]; other site 1029825003541 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1029825003542 SecY translocase; Region: SecY; pfam00344 1029825003543 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1029825003544 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 1029825003545 23S rRNA binding site [nucleotide binding]; other site 1029825003546 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1029825003547 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1029825003548 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1029825003549 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 1029825003550 5S rRNA interface [nucleotide binding]; other site 1029825003551 23S rRNA interface [nucleotide binding]; other site 1029825003552 L5 interface [polypeptide binding]; other site 1029825003553 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1029825003554 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1029825003555 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1029825003556 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1029825003557 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1029825003558 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1029825003559 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1029825003560 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1029825003561 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1029825003562 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1029825003563 RNA binding site [nucleotide binding]; other site 1029825003564 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1029825003565 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1029825003566 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 1029825003567 23S rRNA interface [nucleotide binding]; other site 1029825003568 putative translocon interaction site; other site 1029825003569 signal recognition particle (SRP54) interaction site; other site 1029825003570 L23 interface [polypeptide binding]; other site 1029825003571 trigger factor interaction site; other site 1029825003572 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 1029825003573 23S rRNA interface [nucleotide binding]; other site 1029825003574 5S rRNA interface [nucleotide binding]; other site 1029825003575 putative antibiotic binding site [chemical binding]; other site 1029825003576 L25 interface [polypeptide binding]; other site 1029825003577 L27 interface [polypeptide binding]; other site 1029825003578 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1029825003579 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 1029825003580 G-X-X-G motif; other site 1029825003581 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1029825003582 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 1029825003583 putative translocon binding site; other site 1029825003584 protein-rRNA interface [nucleotide binding]; other site 1029825003585 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1029825003586 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1029825003587 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1029825003588 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1029825003589 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1029825003590 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1029825003591 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1029825003592 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1029825003593 elongation factor G; Reviewed; Region: PRK00007 1029825003594 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1029825003595 G1 box; other site 1029825003596 putative GEF interaction site [polypeptide binding]; other site 1029825003597 GTP/Mg2+ binding site [chemical binding]; other site 1029825003598 Switch I region; other site 1029825003599 G2 box; other site 1029825003600 G3 box; other site 1029825003601 Switch II region; other site 1029825003602 G4 box; other site 1029825003603 G5 box; other site 1029825003604 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 1029825003605 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 1029825003606 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 1029825003607 30S ribosomal protein S7; Validated; Region: PRK05302 1029825003608 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 1029825003609 S17 interaction site [polypeptide binding]; other site 1029825003610 S8 interaction site; other site 1029825003611 16S rRNA interaction site [nucleotide binding]; other site 1029825003612 streptomycin interaction site [chemical binding]; other site 1029825003613 23S rRNA interaction site [nucleotide binding]; other site 1029825003614 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1029825003615 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1029825003616 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1029825003617 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1029825003618 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1029825003619 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1029825003620 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1029825003621 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1029825003622 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1029825003623 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1029825003624 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1029825003625 DNA binding site [nucleotide binding] 1029825003626 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1029825003627 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1029825003628 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 1029825003629 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1029825003630 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1029825003631 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 1029825003632 RPB11 interaction site [polypeptide binding]; other site 1029825003633 RPB12 interaction site [polypeptide binding]; other site 1029825003634 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 1029825003635 RPB1 interaction site [polypeptide binding]; other site 1029825003636 RPB11 interaction site [polypeptide binding]; other site 1029825003637 RPB10 interaction site [polypeptide binding]; other site 1029825003638 RPB3 interaction site [polypeptide binding]; other site 1029825003639 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 1029825003640 L11 interface [polypeptide binding]; other site 1029825003641 putative EF-Tu interaction site [polypeptide binding]; other site 1029825003642 putative EF-G interaction site [polypeptide binding]; other site 1029825003643 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 1029825003644 23S rRNA interface [nucleotide binding]; other site 1029825003645 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1029825003646 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 1029825003647 mRNA/rRNA interface [nucleotide binding]; other site 1029825003648 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1029825003649 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 1029825003650 23S rRNA interface [nucleotide binding]; other site 1029825003651 L7/L12 interface [polypeptide binding]; other site 1029825003652 putative thiostrepton binding site; other site 1029825003653 L25 interface [polypeptide binding]; other site 1029825003654 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1029825003655 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1029825003656 putative homodimer interface [polypeptide binding]; other site 1029825003657 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1029825003658 heterodimer interface [polypeptide binding]; other site 1029825003659 homodimer interface [polypeptide binding]; other site 1029825003660 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1029825003661 elongation factor Tu; Reviewed; Region: PRK00049 1029825003662 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1029825003663 G1 box; other site 1029825003664 GEF interaction site [polypeptide binding]; other site 1029825003665 GTP/Mg2+ binding site [chemical binding]; other site 1029825003666 Switch I region; other site 1029825003667 G2 box; other site 1029825003668 G3 box; other site 1029825003669 Switch II region; other site 1029825003670 G4 box; other site 1029825003671 G5 box; other site 1029825003672 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 1029825003673 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 1029825003674 Antibiotic Binding Site [chemical binding]; other site 1029825003675 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1029825003676 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1029825003677 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1029825003678 FOG: CBS domain [General function prediction only]; Region: COG0517 1029825003679 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 1029825003680 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1029825003681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 1029825003682 PAS domain; Region: PAS_5; pfam07310 1029825003683 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1029825003684 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1029825003685 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1029825003686 trimer interface [polypeptide binding]; other site 1029825003687 putative metal binding site [ion binding]; other site 1029825003688 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1029825003689 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825003690 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 1029825003691 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1029825003692 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 1029825003693 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 1029825003694 trimer interface [polypeptide binding]; other site 1029825003695 active site 1029825003696 substrate binding site [chemical binding]; other site 1029825003697 CoA binding site [chemical binding]; other site 1029825003698 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1029825003699 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1029825003700 Uncharacterized conserved protein [Function unknown]; Region: COG1430 1029825003701 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 1029825003702 DNA-binding site [nucleotide binding]; DNA binding site 1029825003703 RNA-binding motif; other site 1029825003704 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 1029825003705 DNA-binding site [nucleotide binding]; DNA binding site 1029825003706 RNA-binding motif; other site 1029825003707 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029825003708 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1029825003709 dimer interface [polypeptide binding]; other site 1029825003710 active site 1029825003711 metal binding site [ion binding]; metal-binding site 1029825003712 glutathione binding site [chemical binding]; other site 1029825003713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1029825003714 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1029825003715 DHH family; Region: DHH; pfam01368 1029825003716 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1029825003717 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1029825003718 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1029825003719 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1029825003720 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1029825003721 putative active site [active] 1029825003722 homoserine dehydrogenase; Provisional; Region: PRK06349 1029825003723 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1029825003724 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1029825003725 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1029825003726 aminotransferase; Validated; Region: PRK09148 1029825003727 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 1029825003728 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825003729 homodimer interface [polypeptide binding]; other site 1029825003730 catalytic residue [active] 1029825003731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1029825003732 Peptidase M15; Region: Peptidase_M15_3; cl01194 1029825003733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 1029825003734 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1029825003735 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 1029825003736 active site 1029825003737 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1029825003738 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1029825003739 MPN+ (JAMM) motif; other site 1029825003740 Zinc-binding site [ion binding]; other site 1029825003741 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1029825003742 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1029825003743 active site 1029825003744 SAM binding site [chemical binding]; other site 1029825003745 putative homodimer interface [polypeptide binding]; other site 1029825003746 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1029825003747 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 1029825003748 S-adenosylmethionine binding site [chemical binding]; other site 1029825003749 precorrin-3B synthase; Region: CobG; TIGR02435 1029825003750 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1029825003751 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1029825003752 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1029825003753 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1029825003754 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1029825003755 active site 1029825003756 SAM binding site [chemical binding]; other site 1029825003757 homodimer interface [polypeptide binding]; other site 1029825003758 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1029825003759 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1029825003760 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1029825003761 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1029825003762 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1029825003763 active site 1029825003764 SAM binding site [chemical binding]; other site 1029825003765 homodimer interface [polypeptide binding]; other site 1029825003766 potential frameshift: common BLAST hit: gi|340790908|ref|YP_004756373.1| phospholipase/carboxylesterase 1029825003767 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1029825003768 potential frameshift: common BLAST hit: gi|376272978|ref|YP_005151556.1| phospholipase/carboxylesterase 1029825003769 TIGR02099 family protein; Region: TIGR02099 1029825003770 Flavin Reductases; Region: FlaRed; cl00801 1029825003771 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1029825003772 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1029825003773 ligand binding site [chemical binding]; other site 1029825003774 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1029825003775 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1029825003776 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1029825003777 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 1029825003778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825003779 homodimer interface [polypeptide binding]; other site 1029825003780 catalytic residue [active] 1029825003781 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1029825003782 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1029825003783 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1029825003784 active site 1029825003785 SAM binding site [chemical binding]; other site 1029825003786 homodimer interface [polypeptide binding]; other site 1029825003787 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1029825003788 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1029825003789 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1029825003790 active site 1029825003791 SAM binding site [chemical binding]; other site 1029825003792 homodimer interface [polypeptide binding]; other site 1029825003793 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1029825003794 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1029825003795 tellurium resistance terB-like protein; Region: terB_like; cd07177 1029825003796 metal binding site [ion binding]; metal-binding site 1029825003797 hypothetical protein; Provisional; Region: PRK10621 1029825003798 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1029825003799 Predicted membrane protein [Function unknown]; Region: COG2510 1029825003800 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1029825003801 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1029825003802 homodimer interface [polypeptide binding]; other site 1029825003803 Walker A motif; other site 1029825003804 ATP binding site [chemical binding]; other site 1029825003805 hydroxycobalamin binding site [chemical binding]; other site 1029825003806 Walker B motif; other site 1029825003807 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1029825003808 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1029825003809 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1029825003810 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1029825003811 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1029825003812 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1029825003813 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 1029825003814 homotrimer interface [polypeptide binding]; other site 1029825003815 Walker A motif; other site 1029825003816 GTP binding site [chemical binding]; other site 1029825003817 Walker B motif; other site 1029825003818 Predicted integral membrane protein [Function unknown]; Region: COG5446 1029825003819 cobalt transporter subunit CbtB (proposed); Region: CbtB; TIGR02459 1029825003820 cobyric acid synthase; Provisional; Region: PRK00784 1029825003821 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1029825003822 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1029825003823 catalytic triad [active] 1029825003824 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1029825003825 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1029825003826 substrate binding pocket [chemical binding]; other site 1029825003827 FAD binding site [chemical binding]; other site 1029825003828 catalytic base [active] 1029825003829 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1029825003830 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1029825003831 Predicted small secreted protein [Function unknown]; Region: COG5510 1029825003832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1029825003833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825003834 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 1029825003835 dimerization interface [polypeptide binding]; other site 1029825003836 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1029825003837 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1029825003838 conserved cys residue [active] 1029825003839 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825003840 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825003841 potential frameshift: common BLAST hit: gi|17986967|ref|NP_539601.1| sarcosine dehydrogenase 1029825003842 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1029825003843 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1029825003844 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1029825003845 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1029825003846 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1029825003847 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1029825003848 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1029825003849 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1029825003850 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1029825003851 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1029825003852 Protein export membrane protein; Region: SecD_SecF; pfam02355 1029825003853 putative cation:proton antiport protein; Provisional; Region: PRK10669 1029825003854 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1029825003855 TrkA-N domain; Region: TrkA_N; pfam02254 1029825003856 Predicted integral membrane protein [Function unknown]; Region: COG0392 1029825003857 potential frameshift: common BLAST hit: gi|376276060|ref|YP_005116499.1| putative esterase of the alpha/beta hydrolase fold protein 1029825003858 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1029825003859 Serine hydrolase; Region: Ser_hydrolase; cl17834 1029825003860 sulfate transport protein; Provisional; Region: cysT; CHL00187 1029825003861 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 1029825003862 dimer interface [polypeptide binding]; other site 1029825003863 conserved gate region; other site 1029825003864 putative PBP binding loops; other site 1029825003865 ABC-ATPase subunit interface; other site 1029825003866 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1029825003867 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 1029825003868 dimer interface [polypeptide binding]; other site 1029825003869 conserved gate region; other site 1029825003870 putative PBP binding loops; other site 1029825003871 ABC-ATPase subunit interface; other site 1029825003872 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1029825003873 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1029825003874 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1029825003875 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1029825003876 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 1029825003877 Transporter associated domain; Region: CorC_HlyC; smart01091 1029825003878 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1029825003879 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1029825003880 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1029825003881 short chain dehydrogenase; Provisional; Region: PRK06198 1029825003882 classical (c) SDRs; Region: SDR_c; cd05233 1029825003883 NAD(P) binding site [chemical binding]; other site 1029825003884 active site 1029825003885 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1029825003886 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1029825003887 Walker A/P-loop; other site 1029825003888 ATP binding site [chemical binding]; other site 1029825003889 Q-loop/lid; other site 1029825003890 ABC transporter signature motif; other site 1029825003891 Walker B; other site 1029825003892 D-loop; other site 1029825003893 H-loop/switch region; other site 1029825003894 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825003895 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 1029825003896 TM-ABC transporter signature motif; other site 1029825003897 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1029825003898 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1029825003899 putative ligand binding site [chemical binding]; other site 1029825003900 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825003901 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825003902 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1029825003903 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1029825003904 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1029825003905 Walker A/P-loop; other site 1029825003906 ATP binding site [chemical binding]; other site 1029825003907 Q-loop/lid; other site 1029825003908 ABC transporter signature motif; other site 1029825003909 Walker B; other site 1029825003910 D-loop; other site 1029825003911 H-loop/switch region; other site 1029825003912 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1029825003913 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 1029825003914 ABC-ATPase subunit interface; other site 1029825003915 dimer interface [polypeptide binding]; other site 1029825003916 putative PBP binding regions; other site 1029825003917 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1029825003918 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 1029825003919 intersubunit interface [polypeptide binding]; other site 1029825003920 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1029825003921 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 1029825003922 N-terminal plug; other site 1029825003923 ligand-binding site [chemical binding]; other site 1029825003924 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1029825003925 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1029825003926 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1029825003927 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1029825003928 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1029825003929 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1029825003930 Walker A/P-loop; other site 1029825003931 ATP binding site [chemical binding]; other site 1029825003932 Q-loop/lid; other site 1029825003933 ABC transporter signature motif; other site 1029825003934 Walker B; other site 1029825003935 D-loop; other site 1029825003936 H-loop/switch region; other site 1029825003937 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1029825003938 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1029825003939 Walker A/P-loop; other site 1029825003940 ATP binding site [chemical binding]; other site 1029825003941 Q-loop/lid; other site 1029825003942 ABC transporter signature motif; other site 1029825003943 Walker B; other site 1029825003944 D-loop; other site 1029825003945 H-loop/switch region; other site 1029825003946 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1029825003947 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825003948 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825003949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1029825003950 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1029825003951 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 1029825003952 alpha-gamma subunit interface [polypeptide binding]; other site 1029825003953 beta-gamma subunit interface [polypeptide binding]; other site 1029825003954 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 1029825003955 alpha-beta subunit interface [polypeptide binding]; other site 1029825003956 urease subunit alpha; Reviewed; Region: ureC; PRK13309 1029825003957 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 1029825003958 subunit interactions [polypeptide binding]; other site 1029825003959 active site 1029825003960 flap region; other site 1029825003961 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 1029825003962 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 1029825003963 dimer interface [polypeptide binding]; other site 1029825003964 catalytic residues [active] 1029825003965 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1029825003966 UreF; Region: UreF; pfam01730 1029825003967 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1029825003968 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1029825003969 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 1029825003970 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 1029825003971 cobalt transport protein CbiM; Validated; Region: PRK06265 1029825003972 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1029825003973 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 1029825003974 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1029825003975 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1029825003976 Walker A/P-loop; other site 1029825003977 ATP binding site [chemical binding]; other site 1029825003978 Q-loop/lid; other site 1029825003979 ABC transporter signature motif; other site 1029825003980 Walker B; other site 1029825003981 D-loop; other site 1029825003982 H-loop/switch region; other site 1029825003983 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK01636 1029825003984 Uncharacterized conserved protein [Function unknown]; Region: COG3439 1029825003985 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1029825003986 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1029825003987 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1029825003988 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1029825003989 nudix motif; other site 1029825003990 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1029825003991 putative catalytic site [active] 1029825003992 putative metal binding site [ion binding]; other site 1029825003993 putative phosphate binding site [ion binding]; other site 1029825003994 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1029825003995 putative metal binding site [ion binding]; other site 1029825003996 BA14K-like protein; Region: BA14K; pfam07886 1029825003997 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1029825003998 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 1029825003999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825004000 homodimer interface [polypeptide binding]; other site 1029825004001 catalytic residue [active] 1029825004002 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1029825004003 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1029825004004 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1029825004005 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1029825004006 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1029825004007 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1029825004008 potassium uptake protein; Region: kup; TIGR00794 1029825004009 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 1029825004010 active site 1029825004011 hydrophilic channel; other site 1029825004012 dimerization interface [polypeptide binding]; other site 1029825004013 catalytic residues [active] 1029825004014 active site lid [active] 1029825004015 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 1029825004016 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 1029825004017 AAA domain; Region: AAA_30; pfam13604 1029825004018 Family description; Region: UvrD_C_2; pfam13538 1029825004019 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1029825004020 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1029825004021 putative valine binding site [chemical binding]; other site 1029825004022 dimer interface [polypeptide binding]; other site 1029825004023 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1029825004024 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1029825004025 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1029825004026 PYR/PP interface [polypeptide binding]; other site 1029825004027 dimer interface [polypeptide binding]; other site 1029825004028 TPP binding site [chemical binding]; other site 1029825004029 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1029825004030 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 1029825004031 TPP-binding site [chemical binding]; other site 1029825004032 dimer interface [polypeptide binding]; other site 1029825004033 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1029825004034 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1029825004035 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1029825004036 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1029825004037 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 1029825004038 motif II; other site 1029825004039 Predicted flavoproteins [General function prediction only]; Region: COG2081 1029825004040 Predicted flavoproteins [General function prediction only]; Region: COG2081 1029825004041 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1029825004042 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1029825004043 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1029825004044 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 1029825004045 protein binding site [polypeptide binding]; other site 1029825004046 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 1029825004047 protein binding site [polypeptide binding]; other site 1029825004048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1029825004049 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1029825004050 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 1029825004051 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1029825004052 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 1029825004053 HflK protein; Region: hflK; TIGR01933 1029825004054 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1029825004055 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 1029825004056 folate binding site [chemical binding]; other site 1029825004057 NADP+ binding site [chemical binding]; other site 1029825004058 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1029825004059 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 1029825004060 dimerization interface [polypeptide binding]; other site 1029825004061 active site 1029825004062 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 1029825004063 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 1029825004064 putative substrate translocation pore; other site 1029825004065 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1029825004066 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1029825004067 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1029825004068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1029825004069 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 1029825004070 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1029825004071 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1029825004072 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1029825004073 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1029825004074 FAD binding domain; Region: FAD_binding_4; pfam01565 1029825004075 Uncharacterized conserved protein [Function unknown]; Region: COG4702 1029825004076 serine/threonine protein kinase; Provisional; Region: PRK09188 1029825004077 serine/threonine protein kinase; Provisional; Region: PRK12274 1029825004078 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1029825004079 Part of AAA domain; Region: AAA_19; pfam13245 1029825004080 Family description; Region: UvrD_C_2; pfam13538 1029825004081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1029825004082 CreA protein; Region: CreA; pfam05981 1029825004083 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 1029825004084 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1029825004085 trimer interface [polypeptide binding]; other site 1029825004086 active site 1029825004087 substrate binding site [chemical binding]; other site 1029825004088 CoA binding site [chemical binding]; other site 1029825004089 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1029825004090 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1029825004091 Cu(I) binding site [ion binding]; other site 1029825004092 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1029825004093 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 1029825004094 S-adenosylmethionine binding site [chemical binding]; other site 1029825004095 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1029825004096 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1029825004097 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 1029825004098 active site 1029825004099 Uncharacterized conserved protein [Function unknown]; Region: COG5587 1029825004100 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1029825004101 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 1029825004102 nucleotide binding pocket [chemical binding]; other site 1029825004103 K-X-D-G motif; other site 1029825004104 catalytic site [active] 1029825004105 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1029825004106 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1029825004107 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 1029825004108 Dimer interface [polypeptide binding]; other site 1029825004109 BRCT sequence motif; other site 1029825004110 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1029825004111 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1029825004112 Walker A/P-loop; other site 1029825004113 ATP binding site [chemical binding]; other site 1029825004114 Q-loop/lid; other site 1029825004115 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1029825004116 ABC transporter signature motif; other site 1029825004117 Walker B; other site 1029825004118 D-loop; other site 1029825004119 H-loop/switch region; other site 1029825004120 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1029825004121 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 1029825004122 binding surface 1029825004123 TPR motif; other site 1029825004124 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1029825004125 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1029825004126 cell division protein FtsZ; Validated; Region: PRK09330 1029825004127 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 1029825004128 nucleotide binding site [chemical binding]; other site 1029825004129 SulA interaction site; other site 1029825004130 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1029825004131 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1029825004132 Cell division protein FtsA; Region: FtsA; smart00842 1029825004133 Cell division protein FtsA; Region: FtsA; pfam14450 1029825004134 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1029825004135 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1029825004136 Cell division protein FtsQ; Region: FtsQ; pfam03799 1029825004137 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1029825004138 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1029825004139 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1029825004140 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1029825004141 FAD binding domain; Region: FAD_binding_4; pfam01565 1029825004142 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1029825004143 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1029825004144 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1029825004145 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1029825004146 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1029825004147 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 1029825004148 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1029825004149 active site 1029825004150 homodimer interface [polypeptide binding]; other site 1029825004151 cell division protein FtsW; Region: ftsW; TIGR02614 1029825004152 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 1029825004153 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1029825004154 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1029825004155 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1029825004156 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 1029825004157 Mg++ binding site [ion binding]; other site 1029825004158 putative catalytic motif [active] 1029825004159 putative substrate binding site [chemical binding]; other site 1029825004160 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 1029825004161 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1029825004162 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1029825004163 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1029825004164 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1029825004165 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1029825004166 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1029825004167 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1029825004168 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1029825004169 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1029825004170 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1029825004171 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1029825004172 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1029825004173 MraW methylase family; Region: Methyltransf_5; cl17771 1029825004174 manganese transport protein MntH; Reviewed; Region: PRK00701 1029825004175 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1029825004176 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1029825004177 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 1029825004178 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1029825004179 catalytic residue [active] 1029825004180 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1029825004181 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 1029825004182 amidase catalytic site [active] 1029825004183 Zn binding residues [ion binding]; other site 1029825004184 substrate binding site [chemical binding]; other site 1029825004185 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1029825004186 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1029825004187 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1029825004188 putative metal binding site [ion binding]; other site 1029825004189 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 1029825004190 HSP70 interaction site [polypeptide binding]; other site 1029825004191 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1029825004192 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 1029825004193 active site 1029825004194 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1029825004195 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1029825004196 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1029825004197 Predicted permeases [General function prediction only]; Region: COG0679 1029825004198 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 1029825004199 FAD binding site [chemical binding]; other site 1029825004200 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 1029825004201 dimerization interface [polypeptide binding]; other site 1029825004202 putative DNA binding site [nucleotide binding]; other site 1029825004203 putative Zn2+ binding site [ion binding]; other site 1029825004204 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1029825004205 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 1029825004206 S-adenosylmethionine binding site [chemical binding]; other site 1029825004207 Uncharacterized conserved protein [Function unknown]; Region: COG5586 1029825004208 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1029825004209 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 1029825004210 putative substrate translocation pore; other site 1029825004211 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1029825004212 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 1029825004213 S-adenosylmethionine binding site [chemical binding]; other site 1029825004214 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1029825004215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825004216 Walker A/P-loop; other site 1029825004217 ATP binding site [chemical binding]; other site 1029825004218 Q-loop/lid; other site 1029825004219 ABC transporter signature motif; other site 1029825004220 Walker B; other site 1029825004221 D-loop; other site 1029825004222 H-loop/switch region; other site 1029825004223 ABC transporter; Region: ABC_tran_2; pfam12848 1029825004224 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1029825004225 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1029825004226 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1029825004227 PGAP1-like protein; Region: PGAP1; pfam07819 1029825004228 Protein of unknown function (DUF1498); Region: DUF1498; pfam07385 1029825004229 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1029825004230 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1029825004231 [2Fe-2S] cluster binding site [ion binding]; other site 1029825004232 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 1029825004233 putative alpha subunit interface [polypeptide binding]; other site 1029825004234 putative active site [active] 1029825004235 putative substrate binding site [chemical binding]; other site 1029825004236 Fe binding site [ion binding]; other site 1029825004237 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1029825004238 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 1029825004239 FAD binding pocket [chemical binding]; other site 1029825004240 FAD binding motif [chemical binding]; other site 1029825004241 phosphate binding motif [ion binding]; other site 1029825004242 beta-alpha-beta structure motif; other site 1029825004243 NAD binding pocket [chemical binding]; other site 1029825004244 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 1029825004245 catalytic loop [active] 1029825004246 iron binding site [ion binding]; other site 1029825004247 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1029825004248 PhnA protein; Region: PhnA; pfam03831 1029825004249 Isochorismatase family; Region: Isochorismatase; pfam00857 1029825004250 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1029825004251 catalytic triad [active] 1029825004252 metal binding site [ion binding]; metal-binding site 1029825004253 conserved cis-peptide bond; other site 1029825004254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2899 1029825004255 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 1029825004256 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1029825004257 active site 1029825004258 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1029825004259 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1029825004260 active site 1029825004261 catalytic residues [active] 1029825004262 DNA binding site [nucleotide binding] 1029825004263 Int/Topo IB signature motif; other site 1029825004264 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1029825004265 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1029825004266 hypothetical protein; Provisional; Region: PRK05170 1029825004267 Uncharacterized conserved protein [Function unknown]; Region: COG5453 1029825004268 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1029825004269 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1029825004270 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1029825004271 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1029825004272 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029825004273 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1029825004274 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 1029825004275 DNA binding residues [nucleotide binding] 1029825004276 DNA primase; Validated; Region: dnaG; PRK05667 1029825004277 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1029825004278 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1029825004279 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 1029825004280 active site 1029825004281 metal binding site [ion binding]; metal-binding site 1029825004282 interdomain interaction site; other site 1029825004283 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1029825004284 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1029825004285 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1029825004286 PhoU domain; Region: PhoU; pfam01895 1029825004287 PhoU domain; Region: PhoU; pfam01895 1029825004288 Uncharacterized conserved protein [Function unknown]; Region: COG1610 1029825004289 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1029825004290 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1029825004291 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1029825004292 catalytic site [active] 1029825004293 subunit interface [polypeptide binding]; other site 1029825004294 Predicted metalloprotease [General function prediction only]; Region: COG2321 1029825004295 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1029825004296 Predicted membrane protein [Function unknown]; Region: COG5395 1029825004297 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1029825004298 LytTr DNA-binding domain; Region: LytTR; cl04498 1029825004299 potential frameshift: common BLAST hit: gi|340791097|ref|YP_004756562.1| carbamoyl-phosphate synthase, large subunit 1029825004300 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1029825004301 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 1029825004302 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1029825004303 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1029825004304 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 1029825004305 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1029825004306 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1029825004307 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1029825004308 IMP binding site; other site 1029825004309 dimer interface [polypeptide binding]; other site 1029825004310 partial ornithine binding site; other site 1029825004311 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1029825004312 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1029825004313 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1029825004314 NUDIX domain; Region: NUDIX; pfam00293 1029825004315 nudix motif; other site 1029825004316 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 1029825004317 DNA-binding site [nucleotide binding]; DNA binding site 1029825004318 RNA-binding motif; other site 1029825004319 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1029825004320 GST_N family, unknown subfamily 4; 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_4; cd03056 1029825004321 putative C-terminal domain interface [polypeptide binding]; other site 1029825004322 putative GSH binding site (G-site) [chemical binding]; other site 1029825004323 putative dimer interface [polypeptide binding]; other site 1029825004324 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1029825004325 N-terminal domain interface [polypeptide binding]; other site 1029825004326 dimer interface [polypeptide binding]; other site 1029825004327 substrate binding pocket (H-site) [chemical binding]; other site 1029825004328 aspartate aminotransferase; Provisional; Region: PRK05764 1029825004329 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 1029825004330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825004331 homodimer interface [polypeptide binding]; other site 1029825004332 catalytic residue [active] 1029825004333 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1029825004334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825004335 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 1029825004336 putative effector binding pocket; other site 1029825004337 dimerization interface [polypeptide binding]; other site 1029825004338 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1029825004339 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1029825004340 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1029825004341 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1029825004342 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1029825004343 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 1029825004344 putative DNA binding site [nucleotide binding]; other site 1029825004345 putative Zn2+ binding site [ion binding]; other site 1029825004346 AsnC family; Region: AsnC_trans_reg; pfam01037 1029825004347 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029825004348 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1029825004349 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1029825004350 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1029825004351 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1029825004352 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1029825004353 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1029825004354 EamA-like transporter family; Region: EamA; pfam00892 1029825004355 EamA-like transporter family; Region: EamA; pfam00892 1029825004356 Protein of unknown function, DUF486; Region: DUF486; cl01236 1029825004357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 1029825004358 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1029825004359 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 1029825004360 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1029825004361 Bacterial SH3 domain; Region: SH3_3; pfam08239 1029825004362 excinuclease ABC subunit B; Provisional; Region: PRK05298 1029825004363 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 1029825004364 ATP binding site [chemical binding]; other site 1029825004365 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 1029825004366 nucleotide binding region [chemical binding]; other site 1029825004367 ATP-binding site [chemical binding]; other site 1029825004368 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1029825004369 UvrB/uvrC motif; Region: UVR; pfam02151 1029825004370 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 1029825004371 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1029825004372 catalytic residue [active] 1029825004373 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 1029825004374 DNA-binding site [nucleotide binding]; DNA binding site 1029825004375 RNA-binding motif; other site 1029825004376 BA14K-like protein; Region: BA14K; pfam07886 1029825004377 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1029825004378 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1029825004379 MarR family; Region: MarR_2; pfam12802 1029825004380 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029825004381 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 1029825004382 active site 1029825004383 phosphorylation site [posttranslational modification] 1029825004384 intermolecular recognition site; other site 1029825004385 dimerization interface [polypeptide binding]; other site 1029825004386 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 1029825004387 DNA binding site [nucleotide binding] 1029825004388 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; cl00080 1029825004389 dimer interface [polypeptide binding]; other site 1029825004390 phosphorylation site [posttranslational modification] 1029825004391 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 1029825004392 ATP binding site [chemical binding]; other site 1029825004393 Mg2+ binding site [ion binding]; other site 1029825004394 G-X-G motif; other site 1029825004395 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 1029825004396 dimer interface [polypeptide binding]; other site 1029825004397 putative tRNA-binding site [nucleotide binding]; other site 1029825004398 Uncharacterized conserved protein [Function unknown]; Region: COG5465 1029825004399 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1029825004400 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1029825004401 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1029825004402 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1029825004403 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1029825004404 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1029825004405 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1029825004406 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; cd01066 1029825004407 active site 1029825004408 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1029825004409 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1029825004410 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029825004411 active site 1029825004412 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1029825004413 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1029825004414 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1029825004415 5S rRNA interface [nucleotide binding]; other site 1029825004416 CTC domain interface [polypeptide binding]; other site 1029825004417 L16 interface [polypeptide binding]; other site 1029825004418 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 1029825004419 putative active site [active] 1029825004420 catalytic residue [active] 1029825004421 GTP-binding protein YchF; Reviewed; Region: PRK09601 1029825004422 YchF GTPase; Region: YchF; cd01900 1029825004423 G1 box; other site 1029825004424 GTP/Mg2+ binding site [chemical binding]; other site 1029825004425 Switch I region; other site 1029825004426 G2 box; other site 1029825004427 Switch II region; other site 1029825004428 G3 box; other site 1029825004429 G4 box; other site 1029825004430 G5 box; other site 1029825004431 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 1029825004432 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1029825004433 putative active site [active] 1029825004434 putative catalytic site [active] 1029825004435 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1029825004436 putative active site [active] 1029825004437 putative catalytic site [active] 1029825004438 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029825004439 active site 1029825004440 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1029825004441 cytochrome b; Provisional; Region: CYTB; MTH00191 1029825004442 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1029825004443 Qi binding site; other site 1029825004444 intrachain domain interface; other site 1029825004445 interchain domain interface [polypeptide binding]; other site 1029825004446 heme bH binding site [chemical binding]; other site 1029825004447 heme bL binding site [chemical binding]; other site 1029825004448 Qo binding site; other site 1029825004449 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 1029825004450 interchain domain interface [polypeptide binding]; other site 1029825004451 intrachain domain interface; other site 1029825004452 Qi binding site; other site 1029825004453 Qo binding site; other site 1029825004454 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1029825004455 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1029825004456 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1029825004457 [2Fe-2S] cluster binding site [ion binding]; other site 1029825004458 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1029825004459 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1029825004460 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825004461 Walker A/P-loop; other site 1029825004462 ATP binding site [chemical binding]; other site 1029825004463 Q-loop/lid; other site 1029825004464 ABC transporter signature motif; other site 1029825004465 Walker B; other site 1029825004466 D-loop; other site 1029825004467 H-loop/switch region; other site 1029825004468 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1029825004469 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1029825004470 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1029825004471 Walker A/P-loop; other site 1029825004472 ATP binding site [chemical binding]; other site 1029825004473 Q-loop/lid; other site 1029825004474 ABC transporter signature motif; other site 1029825004475 Walker B; other site 1029825004476 D-loop; other site 1029825004477 H-loop/switch region; other site 1029825004478 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1029825004479 Purine nucleoside permease [Nucleotide transport and metabolism]; Region: NUP; COG5042 1029825004480 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1029825004481 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 1029825004482 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1029825004483 Coenzyme A binding pocket [chemical binding]; other site 1029825004484 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 1029825004485 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1029825004486 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1029825004487 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1029825004488 active site 1029825004489 NTP binding site [chemical binding]; other site 1029825004490 metal binding triad [ion binding]; metal-binding site 1029825004491 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1029825004492 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1029825004493 putative active site [active] 1029825004494 putative CoA binding site [chemical binding]; other site 1029825004495 nudix motif; other site 1029825004496 metal binding site [ion binding]; metal-binding site 1029825004497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1029825004498 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1029825004499 MoxR-like ATPases [General function prediction only]; Region: COG0714 1029825004500 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; cl17189 1029825004501 ATP binding site [chemical binding]; other site 1029825004502 Walker B motif; other site 1029825004503 arginine finger; other site 1029825004504 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1029825004505 Protein of unknown function DUF58; Region: DUF58; pfam01882 1029825004506 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 1029825004507 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1029825004508 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1029825004509 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 1029825004510 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1029825004511 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1029825004512 Coenzyme A binding pocket [chemical binding]; other site 1029825004513 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1029825004514 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1029825004515 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1029825004516 putative dimer interface [polypeptide binding]; other site 1029825004517 N-terminal domain interface [polypeptide binding]; other site 1029825004518 putative substrate binding pocket (H-site) [chemical binding]; other site 1029825004519 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1029825004520 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_21; cd04680 1029825004521 nudix motif; other site 1029825004522 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1029825004523 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1029825004524 active site 1029825004525 metal binding site [ion binding]; metal-binding site 1029825004526 2-isopropylmalate synthase; Validated; Region: PRK03739 1029825004527 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1029825004528 active site 1029825004529 catalytic residues [active] 1029825004530 metal binding site [ion binding]; metal-binding site 1029825004531 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1029825004532 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1029825004533 Cation efflux family; Region: Cation_efflux; pfam01545 1029825004534 anthranilate synthase; Provisional; Region: PRK13566 1029825004535 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1029825004536 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1029825004537 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1029825004538 glutamine binding [chemical binding]; other site 1029825004539 catalytic triad [active] 1029825004540 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1029825004541 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 1029825004542 putative DNA binding site [nucleotide binding]; other site 1029825004543 putative Zn2+ binding site [ion binding]; other site 1029825004544 AsnC family; Region: AsnC_trans_reg; pfam01037 1029825004545 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1029825004546 MarR family; Region: MarR_2; pfam12802 1029825004547 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 1029825004548 putative substrate translocation pore; other site 1029825004549 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1029825004550 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG5459 1029825004551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 1029825004552 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1029825004553 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1029825004554 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 1029825004555 dimer interface [polypeptide binding]; other site 1029825004556 conserved gate region; other site 1029825004557 putative PBP binding loops; other site 1029825004558 ABC-ATPase subunit interface; other site 1029825004559 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1029825004560 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825004561 Walker A/P-loop; other site 1029825004562 ATP binding site [chemical binding]; other site 1029825004563 Q-loop/lid; other site 1029825004564 ABC transporter signature motif; other site 1029825004565 Walker B; other site 1029825004566 D-loop; other site 1029825004567 H-loop/switch region; other site 1029825004568 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825004569 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1029825004570 Walker A/P-loop; other site 1029825004571 ATP binding site [chemical binding]; other site 1029825004572 Q-loop/lid; other site 1029825004573 ABC transporter signature motif; other site 1029825004574 Walker B; other site 1029825004575 D-loop; other site 1029825004576 H-loop/switch region; other site 1029825004577 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1029825004578 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1029825004579 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825004580 Walker A/P-loop; other site 1029825004581 ATP binding site [chemical binding]; other site 1029825004582 Q-loop/lid; other site 1029825004583 ABC transporter signature motif; other site 1029825004584 Walker B; other site 1029825004585 D-loop; other site 1029825004586 H-loop/switch region; other site 1029825004587 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1029825004588 dipeptide transporter; Provisional; Region: PRK10913 1029825004589 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1029825004590 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 1029825004591 dimer interface [polypeptide binding]; other site 1029825004592 conserved gate region; other site 1029825004593 putative PBP binding loops; other site 1029825004594 ABC-ATPase subunit interface; other site 1029825004595 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1029825004596 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 1029825004597 dimer interface [polypeptide binding]; other site 1029825004598 conserved gate region; other site 1029825004599 putative PBP binding loops; other site 1029825004600 ABC-ATPase subunit interface; other site 1029825004601 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1029825004602 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1029825004603 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1029825004604 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1029825004605 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 1029825004606 dimerization interface [polypeptide binding]; other site 1029825004607 putative DNA binding site [nucleotide binding]; other site 1029825004608 putative Zn2+ binding site [ion binding]; other site 1029825004609 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1029825004610 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1029825004611 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1029825004612 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1029825004613 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 1029825004614 Ligand Binding Site [chemical binding]; other site 1029825004615 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1029825004616 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1029825004617 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 1029825004618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 1029825004619 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029825004620 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 1029825004621 active site 1029825004622 phosphorylation site [posttranslational modification] 1029825004623 intermolecular recognition site; other site 1029825004624 dimerization interface [polypeptide binding]; other site 1029825004625 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 1029825004626 DNA binding site [nucleotide binding] 1029825004627 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1029825004628 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 1029825004629 inhibitor-cofactor binding pocket; inhibition site 1029825004630 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825004631 catalytic residue [active] 1029825004632 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825004633 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825004634 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1029825004635 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 1029825004636 PAS domain; Region: PAS_8; pfam13188 1029825004637 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1029825004638 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 1029825004639 putative active site [active] 1029825004640 heme pocket [chemical binding]; other site 1029825004641 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 1029825004642 dimer interface [polypeptide binding]; other site 1029825004643 phosphorylation site [posttranslational modification] 1029825004644 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 1029825004645 ATP binding site [chemical binding]; other site 1029825004646 Mg2+ binding site [ion binding]; other site 1029825004647 G-X-G motif; other site 1029825004648 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1029825004649 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1029825004650 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1029825004651 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 1029825004652 dimer interface [polypeptide binding]; other site 1029825004653 conserved gate region; other site 1029825004654 putative PBP binding loops; other site 1029825004655 ABC-ATPase subunit interface; other site 1029825004656 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 1029825004657 dimer interface [polypeptide binding]; other site 1029825004658 conserved gate region; other site 1029825004659 putative PBP binding loops; other site 1029825004660 ABC-ATPase subunit interface; other site 1029825004661 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1029825004662 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1029825004663 Walker A/P-loop; other site 1029825004664 ATP binding site [chemical binding]; other site 1029825004665 Q-loop/lid; other site 1029825004666 ABC transporter signature motif; other site 1029825004667 Walker B; other site 1029825004668 D-loop; other site 1029825004669 H-loop/switch region; other site 1029825004670 TOBE domain; Region: TOBE_2; pfam08402 1029825004671 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1029825004672 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1029825004673 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1029825004674 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1029825004675 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1029825004676 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 1029825004677 non-specific DNA binding site [nucleotide binding]; other site 1029825004678 salt bridge; other site 1029825004679 sequence-specific DNA binding site [nucleotide binding]; other site 1029825004680 isocitrate lyase; Provisional; Region: PRK15063 1029825004681 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1029825004682 tetramer interface [polypeptide binding]; other site 1029825004683 active site 1029825004684 Mg2+/Mn2+ binding site [ion binding]; other site 1029825004685 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 1029825004686 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 1029825004687 NAD binding site [chemical binding]; other site 1029825004688 substrate binding site [chemical binding]; other site 1029825004689 homotetramer interface [polypeptide binding]; other site 1029825004690 homodimer interface [polypeptide binding]; other site 1029825004691 active site 1029825004692 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 1029825004693 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 1029825004694 NAD binding site [chemical binding]; other site 1029825004695 substrate binding site [chemical binding]; other site 1029825004696 homotetramer interface [polypeptide binding]; other site 1029825004697 homodimer interface [polypeptide binding]; other site 1029825004698 active site 1029825004699 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1029825004700 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1029825004701 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1029825004702 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1029825004703 active site 1029825004704 nucleophile elbow; other site 1029825004705 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1029825004706 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1029825004707 DAK2 domain; Region: Dak2; cl03685 1029825004708 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1029825004709 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 1029825004710 DNA binding residues [nucleotide binding] 1029825004711 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1029825004712 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1029825004713 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1029825004714 DAK2 domain; Region: Dak2; pfam02734 1029825004715 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1029825004716 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1029825004717 classical (c) SDRs; Region: SDR_c; cd05233 1029825004718 active site 1029825004719 classical (c) SDRs; Region: SDR_c; cd05233 1029825004720 NAD(P) binding site [chemical binding]; other site 1029825004721 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1029825004722 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1029825004723 putative ligand binding site [chemical binding]; other site 1029825004724 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825004725 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 1029825004726 TM-ABC transporter signature motif; other site 1029825004727 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1029825004728 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1029825004729 Walker A/P-loop; other site 1029825004730 ATP binding site [chemical binding]; other site 1029825004731 Q-loop/lid; other site 1029825004732 ABC transporter signature motif; other site 1029825004733 Walker B; other site 1029825004734 D-loop; other site 1029825004735 H-loop/switch region; other site 1029825004736 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1029825004737 Uncharacterized conserved protein [Function unknown]; Region: COG5591 1029825004738 choline dehydrogenase; Validated; Region: PRK02106 1029825004739 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1029825004740 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1029825004741 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1029825004742 Bacterial transcriptional regulator; Region: IclR; pfam01614 1029825004743 succinic semialdehyde dehydrogenase; Region: PLN02278 1029825004744 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1029825004745 tetramerization interface [polypeptide binding]; other site 1029825004746 NAD(P) binding site [chemical binding]; other site 1029825004747 catalytic residues [active] 1029825004748 Predicted membrane protein [Function unknown]; Region: COG1238 1029825004749 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1029825004750 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1029825004751 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1029825004752 active site 1029825004753 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1029825004754 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1029825004755 helix-hairpin-helix signature motif; other site 1029825004756 substrate binding pocket [chemical binding]; other site 1029825004757 active site 1029825004758 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1029825004759 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1029825004760 active site 1029825004761 HIGH motif; other site 1029825004762 nucleotide binding site [chemical binding]; other site 1029825004763 active site 1029825004764 KMSKS motif; other site 1029825004765 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 1029825004766 active site 1029825004767 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1029825004768 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1029825004769 Coenzyme A binding pocket [chemical binding]; other site 1029825004770 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1029825004771 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1029825004772 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029825004773 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 1029825004774 DNA binding residues [nucleotide binding] 1029825004775 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1029825004776 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 1029825004777 RNA binding surface [nucleotide binding]; other site 1029825004778 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1029825004779 active site 1029825004780 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1029825004781 metal binding site 2 [ion binding]; metal-binding site 1029825004782 putative DNA binding helix; other site 1029825004783 metal binding site 1 [ion binding]; metal-binding site 1029825004784 dimer interface [polypeptide binding]; other site 1029825004785 structural Zn2+ binding site [ion binding]; other site 1029825004786 PAS fold; Region: PAS_4; pfam08448 1029825004787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1029825004788 HWE histidine kinase; Region: HWE_HK; pfam07536 1029825004789 two-component response regulator; Provisional; Region: PRK09191 1029825004790 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 1029825004791 active site 1029825004792 phosphorylation site [posttranslational modification] 1029825004793 intermolecular recognition site; other site 1029825004794 dimerization interface [polypeptide binding]; other site 1029825004795 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1029825004796 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029825004797 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 1029825004798 DNA binding residues [nucleotide binding] 1029825004799 CHASE3 domain; Region: CHASE3; pfam05227 1029825004800 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1029825004801 Histidine kinase; Region: HisKA_2; pfam07568 1029825004802 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 1029825004803 ATP binding site [chemical binding]; other site 1029825004804 Mg2+ binding site [ion binding]; other site 1029825004805 G-X-G motif; other site 1029825004806 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1029825004807 PRC-barrel domain; Region: PRC; pfam05239 1029825004808 PRC-barrel domain; Region: PRC; pfam05239 1029825004809 tonB-system energizer ExbB; Region: exbB; TIGR02797 1029825004810 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1029825004811 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 1029825004812 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1029825004813 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1029825004814 Predicted periplasmic protein [Function unknown]; Region: COG3698 1029825004815 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1029825004816 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1029825004817 FtsX-like permease family; Region: FtsX; pfam02687 1029825004818 potential frameshift: common BLAST hit: gi|256370083|ref|YP_003107594.1| Macrolide export ATP-binding/permease protein macB 1029825004819 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1029825004820 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1029825004821 Walker A/P-loop; other site 1029825004822 ATP binding site [chemical binding]; other site 1029825004823 ABC transporter; Region: ABC_tran; pfam00005 1029825004824 Q-loop/lid; other site 1029825004825 ABC transporter signature motif; other site 1029825004826 Walker B; other site 1029825004827 D-loop; other site 1029825004828 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1029825004829 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825004830 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825004831 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1029825004832 trimer interface [polypeptide binding]; other site 1029825004833 active site 1029825004834 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1029825004835 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 1029825004836 dimerization interface [polypeptide binding]; other site 1029825004837 putative DNA binding site [nucleotide binding]; other site 1029825004838 putative Zn2+ binding site [ion binding]; other site 1029825004839 AsnC family; Region: AsnC_trans_reg; pfam01037 1029825004840 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1029825004841 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 1029825004842 putative dimer interface [polypeptide binding]; other site 1029825004843 putative active site [active] 1029825004844 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1029825004845 diiron binding motif [ion binding]; other site 1029825004846 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1029825004847 CCC1-related protein family; Region: CCC1_like_1; cd02437 1029825004848 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 1029825004849 metabolite-proton symporter; Region: 2A0106; TIGR00883 1029825004850 putative substrate translocation pore; other site 1029825004851 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1029825004852 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 1029825004853 GDP-binding site [chemical binding]; other site 1029825004854 ACT binding site; other site 1029825004855 IMP binding site; other site 1029825004856 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1029825004857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1029825004858 Coenzyme A binding pocket [chemical binding]; other site 1029825004859 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1029825004860 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1029825004861 ligand binding site [chemical binding]; other site 1029825004862 NAD binding site [chemical binding]; other site 1029825004863 dimerization interface [polypeptide binding]; other site 1029825004864 catalytic site [active] 1029825004865 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1029825004866 putative L-serine binding site [chemical binding]; other site 1029825004867 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 1029825004868 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029825004869 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1029825004870 catalytic residue [active] 1029825004871 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1029825004872 Sodium Bile acid symporter family; Region: SBF; pfam01758 1029825004873 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1029825004874 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 1029825004875 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 1029825004876 active site 1029825004877 substrate binding site [chemical binding]; other site 1029825004878 metal binding site [ion binding]; metal-binding site 1029825004879 FtsH Extracellular; Region: FtsH_ext; pfam06480 1029825004880 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1029825004881 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 1029825004882 Walker A motif; other site 1029825004883 ATP binding site [chemical binding]; other site 1029825004884 Walker B motif; other site 1029825004885 arginine finger; other site 1029825004886 Peptidase family M41; Region: Peptidase_M41; pfam01434 1029825004887 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1029825004888 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 1029825004889 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1029825004890 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1029825004891 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1029825004892 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1029825004893 ligand binding site [chemical binding]; other site 1029825004894 translocation protein TolB; Provisional; Region: tolB; PRK05137 1029825004895 TolB amino-terminal domain; Region: TolB_N; pfam04052 1029825004896 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1029825004897 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1029825004898 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1029825004899 TolR protein; Region: tolR; TIGR02801 1029825004900 TolQ protein; Region: tolQ; TIGR02796 1029825004901 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 1029825004902 active site 1029825004903 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1029825004904 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 1029825004905 Walker A motif; other site 1029825004906 ATP binding site [chemical binding]; other site 1029825004907 Walker B motif; other site 1029825004908 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1029825004909 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1029825004910 RuvA N terminal domain; Region: RuvA_N; pfam01330 1029825004911 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1029825004912 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 1029825004913 active site 1029825004914 putative DNA-binding cleft [nucleotide binding]; other site 1029825004915 dimer interface [polypeptide binding]; other site 1029825004916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 1029825004917 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4645 1029825004918 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1029825004919 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 1029825004920 active site 1029825004921 thiamine phosphate binding site [chemical binding]; other site 1029825004922 pyrophosphate binding site [ion binding]; other site 1029825004923 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1029825004924 Sel1-like repeats; Region: SEL1; smart00671 1029825004925 Sel1-like repeats; Region: SEL1; smart00671 1029825004926 elongation factor P; Validated; Region: PRK00529 1029825004927 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1029825004928 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 1029825004929 RNA binding site [nucleotide binding]; other site 1029825004930 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 1029825004931 RNA binding site [nucleotide binding]; other site 1029825004932 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1029825004933 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 1029825004934 active site 1029825004935 dimerization interface [polypeptide binding]; other site 1029825004936 hypothetical protein; Validated; Region: PRK09039 1029825004937 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1029825004938 ligand binding site [chemical binding]; other site 1029825004939 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1029825004940 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1029825004941 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825004942 Walker A/P-loop; other site 1029825004943 ATP binding site [chemical binding]; other site 1029825004944 Q-loop/lid; other site 1029825004945 ABC transporter signature motif; other site 1029825004946 Walker B; other site 1029825004947 D-loop; other site 1029825004948 H-loop/switch region; other site 1029825004949 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 1029825004950 hypothetical protein; Validated; Region: PRK00110 1029825004951 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1029825004952 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825004953 DNA-binding site [nucleotide binding]; DNA binding site 1029825004954 FCD domain; Region: FCD; pfam07729 1029825004955 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1029825004956 Uncharacterized conserved protein [Function unknown]; Region: COG3543 1029825004957 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1029825004958 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1029825004959 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1029825004960 putative active site [active] 1029825004961 metal binding site [ion binding]; metal-binding site 1029825004962 homodimer binding site [polypeptide binding]; other site 1029825004963 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1029825004964 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1029825004965 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 1029825004966 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1029825004967 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 1029825004968 TPP-binding site [chemical binding]; other site 1029825004969 dimer interface [polypeptide binding]; other site 1029825004970 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 1029825004971 PYR/PP interface [polypeptide binding]; other site 1029825004972 dimer interface [polypeptide binding]; other site 1029825004973 TPP binding site [chemical binding]; other site 1029825004974 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1029825004975 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1029825004976 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1029825004977 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1029825004978 Phosphoglycerate kinase; Region: PGK; pfam00162 1029825004979 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 1029825004980 substrate binding site [chemical binding]; other site 1029825004981 hinge regions; other site 1029825004982 ADP binding site [chemical binding]; other site 1029825004983 catalytic site [active] 1029825004984 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1029825004985 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1029825004986 acyl-activating enzyme (AAE) consensus motif; other site 1029825004987 putative AMP binding site [chemical binding]; other site 1029825004988 putative active site [active] 1029825004989 putative CoA binding site [chemical binding]; other site 1029825004990 Predicted transcriptional regulator [Transcription]; Region: COG2378 1029825004991 HTH domain; Region: HTH_11; pfam08279 1029825004992 WYL domain; Region: WYL; pfam13280 1029825004993 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 1029825004994 CoenzymeA binding site [chemical binding]; other site 1029825004995 subunit interaction site [polypeptide binding]; other site 1029825004996 PHB binding site; other site 1029825004997 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1029825004998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1029825004999 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1029825005000 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1029825005001 NAD(P) binding site [chemical binding]; other site 1029825005002 Uncharacterized small protein containing a coiled-coil domain [Function unknown]; Region: COG5509 1029825005003 putative MFS family transporter protein; Provisional; Region: PRK03633 1029825005004 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 1029825005005 putative substrate translocation pore; other site 1029825005006 Uncharacterized small protein [Function unknown]; Region: COG5570 1029825005007 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 1029825005008 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1029825005009 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1029825005010 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1029825005011 NAD binding site [chemical binding]; other site 1029825005012 ATP-grasp domain; Region: ATP-grasp; pfam02222 1029825005013 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1029825005014 TPR repeat; Region: TPR_11; pfam13414 1029825005015 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 1029825005016 TPR motif; other site 1029825005017 binding surface 1029825005018 pyruvate kinase; Provisional; Region: PRK06247 1029825005019 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 1029825005020 domain interfaces; other site 1029825005021 active site 1029825005022 Predicted integral membrane protein [Function unknown]; Region: COG5480 1029825005023 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1029825005024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3750 1029825005025 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1029825005026 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1029825005027 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1029825005028 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1029825005029 Thiamine pyrophosphokinase; Region: TPK; cd07995 1029825005030 active site 1029825005031 dimerization interface [polypeptide binding]; other site 1029825005032 thiamine binding site [chemical binding]; other site 1029825005033 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 1029825005034 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1029825005035 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1029825005036 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 1029825005037 dimer interface [polypeptide binding]; other site 1029825005038 conserved gate region; other site 1029825005039 putative PBP binding loops; other site 1029825005040 ABC-ATPase subunit interface; other site 1029825005041 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 1029825005042 dimer interface [polypeptide binding]; other site 1029825005043 conserved gate region; other site 1029825005044 putative PBP binding loops; other site 1029825005045 ABC-ATPase subunit interface; other site 1029825005046 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 1029825005047 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 1029825005048 Walker A/P-loop; other site 1029825005049 ATP binding site [chemical binding]; other site 1029825005050 Q-loop/lid; other site 1029825005051 ABC transporter signature motif; other site 1029825005052 Walker B; other site 1029825005053 D-loop; other site 1029825005054 H-loop/switch region; other site 1029825005055 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1029825005056 Peptidase family M48; Region: Peptidase_M48; pfam01435 1029825005057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1029825005058 MOSC domain; Region: MOSC; pfam03473 1029825005059 3-alpha domain; Region: 3-alpha; pfam03475 1029825005060 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 1029825005061 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029825005062 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 1029825005063 DNA binding residues [nucleotide binding] 1029825005064 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1029825005065 Ferredoxin [Energy production and conversion]; Region: COG1146 1029825005066 4Fe-4S binding domain; Region: Fer4; pfam00037 1029825005067 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1029825005068 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 1029825005069 RNA binding surface [nucleotide binding]; other site 1029825005070 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1029825005071 ATP binding site [chemical binding]; other site 1029825005072 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1029825005073 putative Mg++ binding site [ion binding]; other site 1029825005074 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 1029825005075 nucleotide binding region [chemical binding]; other site 1029825005076 ATP-binding site [chemical binding]; other site 1029825005077 putative acyltransferase; Provisional; Region: PRK05790 1029825005078 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 1029825005079 dimer interface [polypeptide binding]; other site 1029825005080 active site 1029825005081 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1029825005082 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1029825005083 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1029825005084 Transglycosylase; Region: Transgly; pfam00912 1029825005085 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1029825005086 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1029825005087 substrate binding pocket [chemical binding]; other site 1029825005088 chain length determination region; other site 1029825005089 substrate-Mg2+ binding site; other site 1029825005090 catalytic residues [active] 1029825005091 aspartate-rich region 1; other site 1029825005092 active site lid residues [active] 1029825005093 aspartate-rich region 2; other site 1029825005094 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1029825005095 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1029825005096 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1029825005097 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 1029825005098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029825005099 NAD(P) binding site [chemical binding]; other site 1029825005100 active site 1029825005101 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 1029825005102 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1029825005103 putative substrate translocation pore; other site 1029825005104 pyruvate carboxylase; Reviewed; Region: PRK12999 1029825005105 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1029825005106 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1029825005107 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1029825005108 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1029825005109 active site 1029825005110 catalytic residues [active] 1029825005111 metal binding site [ion binding]; metal-binding site 1029825005112 homodimer binding site [polypeptide binding]; other site 1029825005113 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 1029825005114 carboxyltransferase (CT) interaction site; other site 1029825005115 biotinylation site [posttranslational modification]; other site 1029825005116 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1029825005117 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1029825005118 dimerization interface [polypeptide binding]; other site 1029825005119 ligand binding site [chemical binding]; other site 1029825005120 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1029825005121 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1029825005122 dimerization interface [polypeptide binding]; other site 1029825005123 ligand binding site [chemical binding]; other site 1029825005124 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1029825005125 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1029825005126 Walker A/P-loop; other site 1029825005127 ATP binding site [chemical binding]; other site 1029825005128 Q-loop/lid; other site 1029825005129 ABC transporter signature motif; other site 1029825005130 Walker B; other site 1029825005131 D-loop; other site 1029825005132 H-loop/switch region; other site 1029825005133 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1029825005134 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1029825005135 Walker A/P-loop; other site 1029825005136 ATP binding site [chemical binding]; other site 1029825005137 Q-loop/lid; other site 1029825005138 ABC transporter signature motif; other site 1029825005139 Walker B; other site 1029825005140 D-loop; other site 1029825005141 H-loop/switch region; other site 1029825005142 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1029825005143 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1029825005144 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1029825005145 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1029825005146 TM-ABC transporter signature motif; other site 1029825005147 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825005148 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1029825005149 TM-ABC transporter signature motif; other site 1029825005150 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1029825005151 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1029825005152 potential frameshift: common BLAST hit: gi|340791388|ref|YP_004756853.1| D-amino acid dehydrogenase, small subunit 1029825005153 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1029825005154 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1029825005155 FAD dependent oxidoreductase; Region: DAO; pfam01266 1029825005156 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1029825005157 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825005158 DNA-binding site [nucleotide binding]; DNA binding site 1029825005159 FCD domain; Region: FCD; pfam07729 1029825005160 MarR family; Region: MarR; pfam01047 1029825005161 transcriptional regulator SlyA; Provisional; Region: PRK03573 1029825005162 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 1029825005163 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1029825005164 gamma subunit interface [polypeptide binding]; other site 1029825005165 epsilon subunit interface [polypeptide binding]; other site 1029825005166 LBP interface [polypeptide binding]; other site 1029825005167 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1029825005168 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1029825005169 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 1029825005170 alpha subunit interaction interface [polypeptide binding]; other site 1029825005171 Walker A motif; other site 1029825005172 ATP binding site [chemical binding]; other site 1029825005173 Walker B motif; other site 1029825005174 inhibitor binding site; inhibition site 1029825005175 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1029825005176 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1029825005177 core domain interface [polypeptide binding]; other site 1029825005178 delta subunit interface [polypeptide binding]; other site 1029825005179 epsilon subunit interface [polypeptide binding]; other site 1029825005180 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1029825005181 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1029825005182 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 1029825005183 beta subunit interaction interface [polypeptide binding]; other site 1029825005184 Walker A motif; other site 1029825005185 ATP binding site [chemical binding]; other site 1029825005186 Walker B motif; other site 1029825005187 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1029825005188 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1029825005189 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1029825005190 primosome assembly protein PriA; Validated; Region: PRK05580 1029825005191 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 1029825005192 ATP binding site [chemical binding]; other site 1029825005193 putative Mg++ binding site [ion binding]; other site 1029825005194 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1029825005195 nucleotide binding region [chemical binding]; other site 1029825005196 ATP-binding site [chemical binding]; other site 1029825005197 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1029825005198 active site 1029825005199 intersubunit interactions; other site 1029825005200 catalytic residue [active] 1029825005201 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 1029825005202 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1029825005203 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1029825005204 HIGH motif; other site 1029825005205 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1029825005206 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029825005207 active site 1029825005208 KMSKS motif; other site 1029825005209 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1029825005210 tRNA binding surface [nucleotide binding]; other site 1029825005211 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1029825005212 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1029825005213 catalytic residue [active] 1029825005214 Predicted membrane protein [Function unknown]; Region: COG1289 1029825005215 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1029825005216 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 1029825005217 acetyl-CoA synthetase; Provisional; Region: PRK00174 1029825005218 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1029825005219 active site 1029825005220 CoA binding site [chemical binding]; other site 1029825005221 acyl-activating enzyme (AAE) consensus motif; other site 1029825005222 AMP binding site [chemical binding]; other site 1029825005223 acetate binding site [chemical binding]; other site 1029825005224 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1029825005225 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1029825005226 heat shock protein HtpX; Provisional; Region: PRK01345 1029825005227 NusB family; Region: NusB; pfam01029 1029825005228 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1029825005229 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 1029825005230 S-adenosylmethionine binding site [chemical binding]; other site 1029825005231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 1029825005232 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1029825005233 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 1029825005234 purine monophosphate binding site [chemical binding]; other site 1029825005235 dimer interface [polypeptide binding]; other site 1029825005236 putative catalytic residues [active] 1029825005237 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1029825005238 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1029825005239 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1029825005240 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1029825005241 Predicted membrane protein [Function unknown]; Region: COG3762 1029825005242 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1029825005243 Repair protein; Region: Repair_PSII; pfam04536 1029825005244 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1029825005245 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1029825005246 chorismate mutase; Provisional; Region: PRK09239 1029825005247 signal recognition particle protein; Provisional; Region: PRK10867 1029825005248 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1029825005249 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 1029825005250 P loop; other site 1029825005251 GTP binding site [chemical binding]; other site 1029825005252 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1029825005253 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1029825005254 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1029825005255 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 1029825005256 active site clefts [active] 1029825005257 zinc binding site [ion binding]; other site 1029825005258 dimer interface [polypeptide binding]; other site 1029825005259 pyridoxamine kinase; Validated; Region: PRK05756 1029825005260 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 1029825005261 dimer interface [polypeptide binding]; other site 1029825005262 pyridoxal binding site [chemical binding]; other site 1029825005263 ATP binding site [chemical binding]; other site 1029825005264 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1029825005265 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1029825005266 tetrameric interface [polypeptide binding]; other site 1029825005267 NAD binding site [chemical binding]; other site 1029825005268 catalytic residues [active] 1029825005269 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1029825005270 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825005271 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 1029825005272 dimerization interface [polypeptide binding]; other site 1029825005273 Predicted membrane protein [Function unknown]; Region: COG3619 1029825005274 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 1029825005275 putative active site [active] 1029825005276 Ap4A binding site [chemical binding]; other site 1029825005277 nudix motif; other site 1029825005278 putative metal binding site [ion binding]; other site 1029825005279 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1029825005280 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1029825005281 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1029825005282 protein binding site [polypeptide binding]; other site 1029825005283 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1029825005284 Catalytic dyad [active] 1029825005285 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1029825005286 Peptidase family M23; Region: Peptidase_M23; pfam01551 1029825005287 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1029825005288 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1029825005289 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1029825005290 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1029825005291 active site 1029825005292 (T/H)XGH motif; other site 1029825005293 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1029825005294 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1029825005295 putative catalytic cysteine [active] 1029825005296 gamma-glutamyl kinase; Provisional; Region: PRK05429 1029825005297 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 1029825005298 nucleotide binding site [chemical binding]; other site 1029825005299 homotetrameric interface [polypeptide binding]; other site 1029825005300 putative phosphate binding site [ion binding]; other site 1029825005301 putative allosteric binding site; other site 1029825005302 PUA domain; Region: PUA; pfam01472 1029825005303 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1029825005304 GTP1/OBG; Region: GTP1_OBG; pfam01018 1029825005305 Obg GTPase; Region: Obg; cd01898 1029825005306 G1 box; other site 1029825005307 GTP/Mg2+ binding site [chemical binding]; other site 1029825005308 Switch I region; other site 1029825005309 G2 box; other site 1029825005310 G3 box; other site 1029825005311 Switch II region; other site 1029825005312 G4 box; other site 1029825005313 G5 box; other site 1029825005314 YadA-like C-terminal region; Region: YadA; pfam03895 1029825005315 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1029825005316 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1029825005317 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1029825005318 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1029825005319 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1029825005320 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1029825005321 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1029825005322 Integrase core domain; Region: rve; pfam00665 1029825005323 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1029825005324 Peptidase family M23; Region: Peptidase_M23; pfam01551 1029825005325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1029825005326 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1029825005327 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1029825005328 Clp amino terminal domain; Region: Clp_N; pfam02861 1029825005329 Clp amino terminal domain; Region: Clp_N; pfam02861 1029825005330 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 1029825005331 Walker A motif; other site 1029825005332 ATP binding site [chemical binding]; other site 1029825005333 Walker B motif; other site 1029825005334 arginine finger; other site 1029825005335 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 1029825005336 Walker A motif; other site 1029825005337 ATP binding site [chemical binding]; other site 1029825005338 Walker B motif; other site 1029825005339 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1029825005340 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 1029825005341 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1029825005342 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 1029825005343 S-adenosylmethionine binding site [chemical binding]; other site 1029825005344 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1029825005345 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1029825005346 RF-1 domain; Region: RF-1; pfam00472 1029825005347 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1029825005348 GAF domain; Region: GAF; pfam01590 1029825005349 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1029825005350 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1029825005351 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1029825005352 aspartate kinase; Reviewed; Region: PRK06635 1029825005353 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1029825005354 putative nucleotide binding site [chemical binding]; other site 1029825005355 putative catalytic residues [active] 1029825005356 putative Mg ion binding site [ion binding]; other site 1029825005357 putative aspartate binding site [chemical binding]; other site 1029825005358 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1029825005359 putative allosteric regulatory site; other site 1029825005360 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1029825005361 putative allosteric regulatory residue; other site 1029825005362 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1029825005363 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 1029825005364 S-adenosylmethionine binding site [chemical binding]; other site 1029825005365 EamA-like transporter family; Region: EamA; pfam00892 1029825005366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 1029825005367 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1029825005368 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1029825005369 putative active site [active] 1029825005370 catalytic triad [active] 1029825005371 dimer interface [polypeptide binding]; other site 1029825005372 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1029825005373 GSH binding site [chemical binding]; other site 1029825005374 catalytic residues [active] 1029825005375 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1029825005376 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029825005377 active site 1029825005378 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1029825005379 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1029825005380 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 1029825005381 putative substrate translocation pore; other site 1029825005382 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 1029825005383 putative metal binding site [ion binding]; other site 1029825005384 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 1029825005385 HemY protein N-terminus; Region: HemY_N; pfam07219 1029825005386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 1029825005387 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1029825005388 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 1029825005389 active site 1029825005390 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1029825005391 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 1029825005392 domain interfaces; other site 1029825005393 active site 1029825005394 UGMP family protein; Validated; Region: PRK09604 1029825005395 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1029825005396 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1029825005397 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1029825005398 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1029825005399 YCII-related domain; Region: YCII; cl00999 1029825005400 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1029825005401 Predicted methyltransferase [General function prediction only]; Region: COG3897 1029825005402 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 1029825005403 S-adenosylmethionine binding site [chemical binding]; other site 1029825005404 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1029825005405 EamA-like transporter family; Region: EamA; pfam00892 1029825005406 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 1029825005407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825005408 DNA-binding site [nucleotide binding]; DNA binding site 1029825005409 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 1029825005410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825005411 homodimer interface [polypeptide binding]; other site 1029825005412 catalytic residue [active] 1029825005413 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1029825005414 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1029825005415 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1029825005416 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1029825005417 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1029825005418 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1029825005419 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1029825005420 active site 1029825005421 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1029825005422 catalytic triad [active] 1029825005423 dimer interface [polypeptide binding]; other site 1029825005424 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 1029825005425 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1029825005426 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_19; cd07262 1029825005427 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029825005428 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1029825005429 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1029825005430 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1029825005431 L-aspartate oxidase; Provisional; Region: PRK06175 1029825005432 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1029825005433 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 1029825005434 putative SdhC subunit interface [polypeptide binding]; other site 1029825005435 putative proximal heme binding site [chemical binding]; other site 1029825005436 putative Iron-sulfur protein interface [polypeptide binding]; other site 1029825005437 putative proximal quinone binding site; other site 1029825005438 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 1029825005439 Iron-sulfur protein interface; other site 1029825005440 proximal quinone binding site [chemical binding]; other site 1029825005441 SdhD (CybS) interface [polypeptide binding]; other site 1029825005442 proximal heme binding site [chemical binding]; other site 1029825005443 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1029825005444 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1029825005445 Coenzyme A binding pocket [chemical binding]; other site 1029825005446 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1029825005447 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1029825005448 substrate binding site [chemical binding]; other site 1029825005449 ligand binding site [chemical binding]; other site 1029825005450 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1029825005451 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1029825005452 Cytosine/uracil/thiamine/allantoin permeases [Nucleotide transport and metabolism / Coenzyme metabolism]; Region: FUI1; COG1953 1029825005453 Na binding site [ion binding]; other site 1029825005454 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1029825005455 NIPSNAP; Region: NIPSNAP; pfam07978 1029825005456 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 1029825005457 dimerization interface [polypeptide binding]; other site 1029825005458 putative DNA binding site [nucleotide binding]; other site 1029825005459 putative Zn2+ binding site [ion binding]; other site 1029825005460 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1029825005461 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1029825005462 RimM N-terminal domain; Region: RimM; pfam01782 1029825005463 PRC-barrel domain; Region: PRC; pfam05239 1029825005464 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1029825005465 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 1029825005466 active site 1029825005467 DNA binding site [nucleotide binding] 1029825005468 Int/Topo IB signature motif; other site 1029825005469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 1029825005470 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1029825005471 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1029825005472 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029825005473 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1029825005474 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1029825005475 Predicted membrane protein [Function unknown]; Region: COG3686 1029825005476 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1029825005477 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 1029825005478 E3 interaction surface; other site 1029825005479 lipoyl attachment site [posttranslational modification]; other site 1029825005480 e3 binding domain; Region: E3_binding; pfam02817 1029825005481 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1029825005482 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1029825005483 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 1029825005484 TPP-binding site [chemical binding]; other site 1029825005485 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1029825005486 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1029825005487 CoA binding domain; Region: CoA_binding; smart00881 1029825005488 CoA-ligase; Region: Ligase_CoA; pfam00549 1029825005489 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1029825005490 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1029825005491 CoA-ligase; Region: Ligase_CoA; pfam00549 1029825005492 malate dehydrogenase; Reviewed; Region: PRK06223 1029825005493 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1029825005494 NAD(P) binding site [chemical binding]; other site 1029825005495 dimer interface [polypeptide binding]; other site 1029825005496 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1029825005497 substrate binding site [chemical binding]; other site 1029825005498 Predicted ATPase [General function prediction only]; Region: COG1485 1029825005499 Protease inhibitor Inh; Region: Inh; pfam02974 1029825005500 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1029825005501 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1029825005502 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1029825005503 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1029825005504 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 1029825005505 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 1029825005506 FeS/SAM binding site; other site 1029825005507 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1029825005508 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1029825005509 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1029825005510 intracellular septation protein A; Reviewed; Region: PRK00259 1029825005511 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1029825005512 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 1029825005513 active site 1029825005514 8-oxo-dGMP binding site [chemical binding]; other site 1029825005515 nudix motif; other site 1029825005516 metal binding site [ion binding]; metal-binding site 1029825005517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1029825005518 Coenzyme A binding pocket [chemical binding]; other site 1029825005519 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1029825005520 heterotetramer interface [polypeptide binding]; other site 1029825005521 active site pocket [active] 1029825005522 cleavage site 1029825005523 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 1029825005524 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1029825005525 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1029825005526 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1029825005527 ATP binding site [chemical binding]; other site 1029825005528 putative Mg++ binding site [ion binding]; other site 1029825005529 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1029825005530 SEC-C motif; Region: SEC-C; pfam02810 1029825005531 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 1029825005532 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1029825005533 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1029825005534 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1029825005535 Sulfatase; Region: Sulfatase; pfam00884 1029825005536 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1029825005537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825005538 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; cd05466 1029825005539 dimerization interface [polypeptide binding]; other site 1029825005540 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 1029825005541 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1029825005542 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 1029825005543 membrane-bound complex binding site; other site 1029825005544 hinge residues; other site 1029825005545 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1029825005546 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 1029825005547 dimer interface [polypeptide binding]; other site 1029825005548 conserved gate region; other site 1029825005549 putative PBP binding loops; other site 1029825005550 ABC-ATPase subunit interface; other site 1029825005551 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1029825005552 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 1029825005553 dimer interface [polypeptide binding]; other site 1029825005554 conserved gate region; other site 1029825005555 putative PBP binding loops; other site 1029825005556 ABC-ATPase subunit interface; other site 1029825005557 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1029825005558 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1029825005559 Walker A/P-loop; other site 1029825005560 ATP binding site [chemical binding]; other site 1029825005561 Q-loop/lid; other site 1029825005562 ABC transporter signature motif; other site 1029825005563 Walker B; other site 1029825005564 D-loop; other site 1029825005565 H-loop/switch region; other site 1029825005566 agmatinase; Region: agmatinase; TIGR01230 1029825005567 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 1029825005568 oligomer interface [polypeptide binding]; other site 1029825005569 active site 1029825005570 Mn binding site [ion binding]; other site 1029825005571 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1029825005572 Aspartase; Region: Aspartase; cd01357 1029825005573 active sites [active] 1029825005574 tetramer interface [polypeptide binding]; other site 1029825005575 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1029825005576 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1029825005577 Walker A/P-loop; other site 1029825005578 ATP binding site [chemical binding]; other site 1029825005579 Q-loop/lid; other site 1029825005580 ABC transporter signature motif; other site 1029825005581 Walker B; other site 1029825005582 D-loop; other site 1029825005583 H-loop/switch region; other site 1029825005584 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1029825005585 active site 1029825005586 homotetramer interface [polypeptide binding]; other site 1029825005587 homodimer interface [polypeptide binding]; other site 1029825005588 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1029825005589 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825005590 DNA-binding site [nucleotide binding]; DNA binding site 1029825005591 FCD domain; Region: FCD; pfam07729 1029825005592 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1029825005593 active site 1029825005594 homotetramer interface [polypeptide binding]; other site 1029825005595 homodimer interface [polypeptide binding]; other site 1029825005596 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 1029825005597 D-galactonate transporter; Region: 2A0114; TIGR00893 1029825005598 putative substrate translocation pore; other site 1029825005599 methionine gamma-lyase; Validated; Region: PRK07049 1029825005600 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 1029825005601 homodimer interface [polypeptide binding]; other site 1029825005602 substrate-cofactor binding pocket; other site 1029825005603 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825005604 catalytic residue [active] 1029825005605 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 1029825005606 Ligand Binding Site [chemical binding]; other site 1029825005607 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1029825005608 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 1029825005609 dimer interface [polypeptide binding]; other site 1029825005610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825005611 catalytic residue [active] 1029825005612 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 1029825005613 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1029825005614 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1029825005615 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1029825005616 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1029825005617 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1029825005618 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1029825005619 Ligand binding site [chemical binding]; other site 1029825005620 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1029825005621 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 1029825005622 Ligand Binding Site [chemical binding]; other site 1029825005623 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1029825005624 active site 1029825005625 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 1029825005626 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1029825005627 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1029825005628 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 1029825005629 short chain dehydrogenase; Provisional; Region: PRK05993 1029825005630 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1029825005631 NADP binding site [chemical binding]; other site 1029825005632 active site 1029825005633 steroid binding site; other site 1029825005634 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1029825005635 hypothetical protein; Validated; Region: PRK00124 1029825005636 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1029825005637 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1029825005638 catalytic residues [active] 1029825005639 argininosuccinate lyase; Provisional; Region: PRK00855 1029825005640 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1029825005641 active sites [active] 1029825005642 tetramer interface [polypeptide binding]; other site 1029825005643 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 1029825005644 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1029825005645 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1029825005646 active site 1029825005647 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1029825005648 substrate binding site [chemical binding]; other site 1029825005649 catalytic residues [active] 1029825005650 dimer interface [polypeptide binding]; other site 1029825005651 TIGR02302 family protein; Region: aProt_lowcomp 1029825005652 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029825005653 active site 1029825005654 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1029825005655 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 1029825005656 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1029825005657 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 1029825005658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825005659 homodimer interface [polypeptide binding]; other site 1029825005660 catalytic residue [active] 1029825005661 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 1029825005662 prephenate dehydrogenase; Validated; Region: PRK08507 1029825005663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 1029825005664 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 1029825005665 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1029825005666 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1029825005667 dimerization interface [polypeptide binding]; other site 1029825005668 putative active site pocket [active] 1029825005669 putative catalytic residue [active] 1029825005670 YGGT family; Region: YGGT; pfam02325 1029825005671 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 1029825005672 dimer interface [polypeptide binding]; other site 1029825005673 substrate binding site [chemical binding]; other site 1029825005674 metal binding sites [ion binding]; metal-binding site 1029825005675 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1029825005676 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1029825005677 putative acyl-acceptor binding pocket; other site 1029825005678 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1029825005679 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 1029825005680 putative active site [active] 1029825005681 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1029825005682 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1029825005683 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1029825005684 Walker A/P-loop; other site 1029825005685 ATP binding site [chemical binding]; other site 1029825005686 Q-loop/lid; other site 1029825005687 ABC transporter signature motif; other site 1029825005688 Walker B; other site 1029825005689 D-loop; other site 1029825005690 H-loop/switch region; other site 1029825005691 aquaporin Z; Provisional; Region: PRK05420 1029825005692 amphipathic channel; other site 1029825005693 Asn-Pro-Ala signature motifs; other site 1029825005694 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1029825005695 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1029825005696 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 1029825005697 putative catalytic site [active] 1029825005698 putative phosphate binding site [ion binding]; other site 1029825005699 active site 1029825005700 metal binding site A [ion binding]; metal-binding site 1029825005701 DNA binding site [nucleotide binding] 1029825005702 putative AP binding site [nucleotide binding]; other site 1029825005703 putative metal binding site B [ion binding]; other site 1029825005704 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1029825005705 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 1029825005706 ligand binding site [chemical binding]; other site 1029825005707 flexible hinge region; other site 1029825005708 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029825005709 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 1029825005710 active site 1029825005711 phosphorylation site [posttranslational modification] 1029825005712 intermolecular recognition site; other site 1029825005713 dimerization interface [polypeptide binding]; other site 1029825005714 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 1029825005715 DNA binding site [nucleotide binding] 1029825005716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1029825005717 potential frameshift: common BLAST hit: gi|256370413|ref|YP_003107924.1| outer membrane autotransporter 1029825005718 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 1029825005719 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1029825005720 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 1029825005721 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1029825005722 Autotransporter beta-domain; Region: Autotransporter; smart00869 1029825005723 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1029825005724 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1029825005725 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1029825005726 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 1029825005727 DNA binding residues [nucleotide binding] 1029825005728 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 1029825005729 dimer interface [polypeptide binding]; other site 1029825005730 putative metal binding site [ion binding]; other site 1029825005731 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 1029825005732 metal-binding site [ion binding] 1029825005733 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1029825005734 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 1029825005735 metal-binding site [ion binding] 1029825005736 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1029825005737 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1029825005738 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 1029825005739 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1029825005740 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1029825005741 metal ion-dependent adhesion site (MIDAS); other site 1029825005742 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1029825005743 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1029825005744 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; cl17189 1029825005745 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 1029825005746 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 1029825005747 HSP70 interaction site [polypeptide binding]; other site 1029825005748 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1029825005749 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1029825005750 Domain of unknown function DUF21; Region: DUF21; pfam01595 1029825005751 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 1029825005752 Transporter associated domain; Region: CorC_HlyC; smart01091 1029825005753 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1029825005754 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1029825005755 active site 1029825005756 dimer interface [polypeptide binding]; other site 1029825005757 metal binding site [ion binding]; metal-binding site 1029825005758 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1029825005759 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 1029825005760 ADP binding site [chemical binding]; other site 1029825005761 magnesium binding site [ion binding]; other site 1029825005762 putative shikimate binding site; other site 1029825005763 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1029825005764 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 1029825005765 active site 1029825005766 DNA binding site [nucleotide binding] 1029825005767 Int/Topo IB signature motif; other site 1029825005768 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1029825005769 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1029825005770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1029825005771 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 1029825005772 CPxP motif; other site 1029825005773 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1029825005774 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1029825005775 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1029825005776 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1029825005777 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1029825005778 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1029825005779 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1029825005780 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1029825005781 metal binding site [ion binding]; metal-binding site 1029825005782 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1029825005783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029825005784 NAD(P) binding site [chemical binding]; other site 1029825005785 active site 1029825005786 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1029825005787 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 1029825005788 potential frameshift: common BLAST hit: gi|340791625|ref|YP_004757090.1| L-sorbose dehydrogenase, FAD dependent 1029825005789 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1029825005790 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 1029825005791 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1029825005792 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1029825005793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029825005794 NAD(P) binding site [chemical binding]; other site 1029825005795 active site 1029825005796 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1029825005797 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1029825005798 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1029825005799 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 1029825005800 NAD(P) binding site [chemical binding]; other site 1029825005801 catalytic residues [active] 1029825005802 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1029825005803 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 1029825005804 substrate binding site [chemical binding]; other site 1029825005805 oxyanion hole (OAH) forming residues; other site 1029825005806 trimer interface [polypeptide binding]; other site 1029825005807 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1029825005808 Coenzyme A transferase; Region: CoA_trans; smart00882 1029825005809 Coenzyme A transferase; Region: CoA_trans; cl17247 1029825005810 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825005811 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825005812 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1029825005813 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1029825005814 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1029825005815 DNA binding site [nucleotide binding] 1029825005816 domain linker motif; other site 1029825005817 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1029825005818 putative dimerization interface [polypeptide binding]; other site 1029825005819 putative ligand binding site [chemical binding]; other site 1029825005820 Protein of unknown function (DUF993); Region: DUF993; pfam06187 1029825005821 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1029825005822 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1029825005823 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1029825005824 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1029825005825 zinc binding site [ion binding]; other site 1029825005826 putative ligand binding site [chemical binding]; other site 1029825005827 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825005828 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1029825005829 TM-ABC transporter signature motif; other site 1029825005830 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1029825005831 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825005832 Walker A/P-loop; other site 1029825005833 ATP binding site [chemical binding]; other site 1029825005834 Q-loop/lid; other site 1029825005835 ABC transporter signature motif; other site 1029825005836 Walker B; other site 1029825005837 D-loop; other site 1029825005838 H-loop/switch region; other site 1029825005839 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1029825005840 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1029825005841 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1029825005842 ParB-like nuclease domain; Region: ParB; smart00470 1029825005843 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1029825005844 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1029825005845 P-loop; other site 1029825005846 Magnesium ion binding site [ion binding]; other site 1029825005847 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1029825005848 Magnesium ion binding site [ion binding]; other site 1029825005849 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1029825005850 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1029825005851 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1029825005852 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1029825005853 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1029825005854 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1029825005855 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1029825005856 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1029825005857 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1029825005858 G1 box; other site 1029825005859 G1 box; other site 1029825005860 GTP/Mg2+ binding site [chemical binding]; other site 1029825005861 GTP/Mg2+ binding site [chemical binding]; other site 1029825005862 Switch I region; other site 1029825005863 Switch I region; other site 1029825005864 G2 box; other site 1029825005865 G2 box; other site 1029825005866 Switch II region; other site 1029825005867 G3 box; other site 1029825005868 G4 box; other site 1029825005869 G5 box; other site 1029825005870 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1029825005871 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1029825005872 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 1029825005873 catalytic residues [active] 1029825005874 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1029825005875 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1029825005876 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1029825005877 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 1029825005878 RNA binding site [nucleotide binding]; other site 1029825005879 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 1029825005880 multimer interface [polypeptide binding]; other site 1029825005881 Walker A motif; other site 1029825005882 ATP binding site [chemical binding]; other site 1029825005883 Walker B motif; other site 1029825005884 Predicted membrane protein [Function unknown]; Region: COG1981 1029825005885 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 1029825005886 substrate binding site [chemical binding]; other site 1029825005887 active site 1029825005888 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1029825005889 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 1029825005890 active site 1029825005891 dimer interface [polypeptide binding]; other site 1029825005892 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1029825005893 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1029825005894 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1029825005895 shikimate binding site; other site 1029825005896 NAD(P) binding site [chemical binding]; other site 1029825005897 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1029825005898 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 1029825005899 CoA-binding site [chemical binding]; other site 1029825005900 ATP-binding [chemical binding]; other site 1029825005901 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1029825005902 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 1029825005903 active site 1029825005904 catalytic site [active] 1029825005905 substrate binding site [chemical binding]; other site 1029825005906 preprotein translocase subunit SecB; Validated; Region: PRK05751 1029825005907 SecA binding site; other site 1029825005908 Preprotein binding site; other site 1029825005909 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1029825005910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1029825005911 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1029825005912 MltA specific insert domain; Region: MltA; pfam03562 1029825005913 3D domain; Region: 3D; pfam06725 1029825005914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1029825005915 Smr domain; Region: Smr; pfam01713 1029825005916 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1029825005917 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 1029825005918 sequence-specific DNA binding site [nucleotide binding]; other site 1029825005919 salt bridge; other site 1029825005920 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 1029825005921 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1029825005922 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 1029825005923 Walker A motif; other site 1029825005924 ATP binding site [chemical binding]; other site 1029825005925 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1029825005926 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1029825005927 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 1029825005928 active site 1029825005929 HslU subunit interaction site [polypeptide binding]; other site 1029825005930 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1029825005931 putative active site pocket [active] 1029825005932 4-fold oligomerization interface [polypeptide binding]; other site 1029825005933 metal binding residues [ion binding]; metal-binding site 1029825005934 3-fold/trimer interface [polypeptide binding]; other site 1029825005935 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1029825005936 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1029825005937 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1029825005938 putative active site [active] 1029825005939 oxyanion strand; other site 1029825005940 catalytic triad [active] 1029825005941 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 1029825005942 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1029825005943 catalytic residues [active] 1029825005944 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 1029825005945 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1029825005946 substrate binding site [chemical binding]; other site 1029825005947 glutamase interaction surface [polypeptide binding]; other site 1029825005948 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 1029825005949 metal binding site [ion binding]; metal-binding site 1029825005950 pantothenate kinase; Provisional; Region: PRK05439 1029825005951 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 1029825005952 ATP-binding site [chemical binding]; other site 1029825005953 CoA-binding site [chemical binding]; other site 1029825005954 Mg2+-binding site [ion binding]; other site 1029825005955 hypothetical protein; Provisional; Region: PRK09256 1029825005956 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1029825005957 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1029825005958 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 1029825005959 active site 1029825005960 substrate-binding site [chemical binding]; other site 1029825005961 metal-binding site [ion binding] 1029825005962 ATP binding site [chemical binding]; other site 1029825005963 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029825005964 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 1029825005965 active site 1029825005966 phosphorylation site [posttranslational modification] 1029825005967 intermolecular recognition site; other site 1029825005968 dimerization interface [polypeptide binding]; other site 1029825005969 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 1029825005970 DNA binding site [nucleotide binding] 1029825005971 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 1029825005972 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 1029825005973 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1029825005974 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 1029825005975 dimerization interface [polypeptide binding]; other site 1029825005976 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 1029825005977 dimer interface [polypeptide binding]; other site 1029825005978 phosphorylation site [posttranslational modification] 1029825005979 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 1029825005980 ATP binding site [chemical binding]; other site 1029825005981 Mg2+ binding site [ion binding]; other site 1029825005982 G-X-G motif; other site 1029825005983 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 1029825005984 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1029825005985 Hpr binding site; other site 1029825005986 active site 1029825005987 homohexamer subunit interaction site [polypeptide binding]; other site 1029825005988 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 1029825005989 active pocket/dimerization site; other site 1029825005990 active site 1029825005991 phosphorylation site [posttranslational modification] 1029825005992 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 1029825005993 dimerization domain swap beta strand [polypeptide binding]; other site 1029825005994 regulatory protein interface [polypeptide binding]; other site 1029825005995 active site 1029825005996 regulatory phosphorylation site [posttranslational modification]; other site 1029825005997 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1029825005998 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1029825005999 homotetramer interface [polypeptide binding]; other site 1029825006000 ligand binding site [chemical binding]; other site 1029825006001 catalytic site [active] 1029825006002 NAD binding site [chemical binding]; other site 1029825006003 PAS fold; Region: PAS_7; pfam12860 1029825006004 PAS fold; Region: PAS_7; pfam12860 1029825006005 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1029825006006 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 1029825006007 dimer interface [polypeptide binding]; other site 1029825006008 phosphorylation site [posttranslational modification] 1029825006009 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 1029825006010 ATP binding site [chemical binding]; other site 1029825006011 Mg2+ binding site [ion binding]; other site 1029825006012 G-X-G motif; other site 1029825006013 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1029825006014 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1029825006015 Phosphotransferase enzyme family; Region: APH; pfam01636 1029825006016 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1029825006017 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1029825006018 Substrate binding site; other site 1029825006019 metal-binding site 1029825006020 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 1029825006021 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1029825006022 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 1029825006023 Part of AAA domain; Region: AAA_19; pfam13245 1029825006024 Family description; Region: UvrD_C_2; pfam13538 1029825006025 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1029825006026 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 1029825006027 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1029825006028 catalytic residues [active] 1029825006029 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1029825006030 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1029825006031 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1029825006032 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1029825006033 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 1029825006034 substrate binding site [chemical binding]; other site 1029825006035 active site 1029825006036 catalytic residues [active] 1029825006037 heterodimer interface [polypeptide binding]; other site 1029825006038 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1029825006039 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 1029825006040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825006041 catalytic residue [active] 1029825006042 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 1029825006043 active site 1029825006044 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1029825006045 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 1029825006046 putative active site [active] 1029825006047 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1029825006048 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 1029825006049 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 1029825006050 benzoate transporter; Region: benE; TIGR00843 1029825006051 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1029825006052 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1029825006053 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1029825006054 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1029825006055 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1029825006056 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1029825006057 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1029825006058 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1029825006059 23S rRNA binding site [nucleotide binding]; other site 1029825006060 L21 binding site [polypeptide binding]; other site 1029825006061 L13 binding site [polypeptide binding]; other site 1029825006062 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1029825006063 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1029825006064 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 1029825006065 dimer interface [polypeptide binding]; other site 1029825006066 motif 1; other site 1029825006067 active site 1029825006068 motif 2; other site 1029825006069 motif 3; other site 1029825006070 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1029825006071 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 1029825006072 putative tRNA-binding site [nucleotide binding]; other site 1029825006073 B3/4 domain; Region: B3_4; pfam03483 1029825006074 tRNA synthetase B5 domain; Region: B5; smart00874 1029825006075 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 1029825006076 dimer interface [polypeptide binding]; other site 1029825006077 motif 1; other site 1029825006078 motif 3; other site 1029825006079 motif 2; other site 1029825006080 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1029825006081 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825006082 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825006083 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1029825006084 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1029825006085 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1029825006086 nucleotide binding site [chemical binding]; other site 1029825006087 NEF interaction site [polypeptide binding]; other site 1029825006088 SBD interface [polypeptide binding]; other site 1029825006089 chaperone protein DnaJ; Provisional; Region: PRK10767 1029825006090 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 1029825006091 HSP70 interaction site [polypeptide binding]; other site 1029825006092 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1029825006093 substrate binding site [polypeptide binding]; other site 1029825006094 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1029825006095 Zn binding sites [ion binding]; other site 1029825006096 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1029825006097 dimer interface [polypeptide binding]; other site 1029825006098 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 1029825006099 S-adenosylmethionine binding site [chemical binding]; other site 1029825006100 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 1029825006101 active site 1029825006102 dimer interface [polypeptide binding]; other site 1029825006103 Uncharacterized conserved protein [Function unknown]; Region: COG5470 1029825006104 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1029825006105 glutathione synthetase; Provisional; Region: PRK05246 1029825006106 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1029825006107 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1029825006108 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1029825006109 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1029825006110 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 1029825006111 Walker A motif; other site 1029825006112 ATP binding site [chemical binding]; other site 1029825006113 Walker B motif; other site 1029825006114 arginine finger; other site 1029825006115 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1029825006116 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1029825006117 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1029825006118 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1029825006119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1029825006120 PBP superfamily domain; Region: PBP_like_2; pfam12849 1029825006121 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 1029825006122 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1029825006123 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 1029825006124 dimer interface [polypeptide binding]; other site 1029825006125 conserved gate region; other site 1029825006126 putative PBP binding loops; other site 1029825006127 ABC-ATPase subunit interface; other site 1029825006128 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1029825006129 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1029825006130 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 1029825006131 dimer interface [polypeptide binding]; other site 1029825006132 conserved gate region; other site 1029825006133 putative PBP binding loops; other site 1029825006134 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1029825006135 ABC-ATPase subunit interface; other site 1029825006136 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 1029825006137 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1029825006138 Walker A/P-loop; other site 1029825006139 ATP binding site [chemical binding]; other site 1029825006140 Q-loop/lid; other site 1029825006141 ABC transporter signature motif; other site 1029825006142 Walker B; other site 1029825006143 D-loop; other site 1029825006144 H-loop/switch region; other site 1029825006145 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1029825006146 PhoU domain; Region: PhoU; pfam01895 1029825006147 PhoU domain; Region: PhoU; pfam01895 1029825006148 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1029825006149 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 1029825006150 active site 1029825006151 phosphorylation site [posttranslational modification] 1029825006152 intermolecular recognition site; other site 1029825006153 dimerization interface [polypeptide binding]; other site 1029825006154 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 1029825006155 DNA binding site [nucleotide binding] 1029825006156 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 1029825006157 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1029825006158 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1029825006159 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1029825006160 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1029825006161 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1029825006162 dimerization interface [polypeptide binding]; other site 1029825006163 DPS ferroxidase diiron center [ion binding]; other site 1029825006164 ion pore; other site 1029825006165 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1029825006166 Glycoprotease family; Region: Peptidase_M22; pfam00814 1029825006167 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1029825006168 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1029825006169 Coenzyme A binding pocket [chemical binding]; other site 1029825006170 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1029825006171 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1029825006172 putative acyl-acceptor binding pocket; other site 1029825006173 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1029825006174 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1029825006175 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 1029825006176 FeS/SAM binding site; other site 1029825006177 TRAM domain; Region: TRAM; cl01282 1029825006178 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1029825006179 PhoH-like protein; Region: PhoH; pfam02562 1029825006180 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1029825006181 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1029825006182 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 1029825006183 Transporter associated domain; Region: CorC_HlyC; smart01091 1029825006184 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1029825006185 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1029825006186 putative active site [active] 1029825006187 catalytic triad [active] 1029825006188 putative dimer interface [polypeptide binding]; other site 1029825006189 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1029825006190 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 1029825006191 non-specific DNA binding site [nucleotide binding]; other site 1029825006192 salt bridge; other site 1029825006193 sequence-specific DNA binding site [nucleotide binding]; other site 1029825006194 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1029825006195 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1029825006196 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1029825006197 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1029825006198 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1029825006199 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1029825006200 Sm and related proteins; Region: Sm_like; cl00259 1029825006201 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1029825006202 putative oligomer interface [polypeptide binding]; other site 1029825006203 putative RNA binding site [nucleotide binding]; other site 1029825006204 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1029825006205 NusA N-terminal domain; Region: NusA_N; pfam08529 1029825006206 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 1029825006207 RNA binding site [nucleotide binding]; other site 1029825006208 homodimer interface [polypeptide binding]; other site 1029825006209 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 1029825006210 G-X-X-G motif; other site 1029825006211 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 1029825006212 G-X-X-G motif; other site 1029825006213 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1029825006214 hypothetical protein; Provisional; Region: PRK09190 1029825006215 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 1029825006216 putative RNA binding cleft [nucleotide binding]; other site 1029825006217 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1029825006218 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1029825006219 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1029825006220 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1029825006221 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1029825006222 G1 box; other site 1029825006223 putative GEF interaction site [polypeptide binding]; other site 1029825006224 GTP/Mg2+ binding site [chemical binding]; other site 1029825006225 Switch I region; other site 1029825006226 G2 box; other site 1029825006227 G3 box; other site 1029825006228 Switch II region; other site 1029825006229 G4 box; other site 1029825006230 G5 box; other site 1029825006231 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 1029825006232 Translation-initiation factor 2; Region: IF-2; pfam11987 1029825006233 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 1029825006234 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1029825006235 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 1029825006236 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1029825006237 RNA binding site [nucleotide binding]; other site 1029825006238 active site 1029825006239 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1029825006240 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 1029825006241 16S/18S rRNA binding site [nucleotide binding]; other site 1029825006242 S13e-L30e interaction site [polypeptide binding]; other site 1029825006243 25S rRNA binding site [nucleotide binding]; other site 1029825006244 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1029825006245 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1029825006246 RNase E interface [polypeptide binding]; other site 1029825006247 trimer interface [polypeptide binding]; other site 1029825006248 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1029825006249 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1029825006250 RNase E interface [polypeptide binding]; other site 1029825006251 trimer interface [polypeptide binding]; other site 1029825006252 active site 1029825006253 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 1029825006254 putative nucleic acid binding region [nucleotide binding]; other site 1029825006255 G-X-X-G motif; other site 1029825006256 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 1029825006257 RNA binding site [nucleotide binding]; other site 1029825006258 domain interface; other site 1029825006259 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1029825006260 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 1029825006261 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 1029825006262 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 1029825006263 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1029825006264 NAD binding site [chemical binding]; other site 1029825006265 homotetramer interface [polypeptide binding]; other site 1029825006266 homodimer interface [polypeptide binding]; other site 1029825006267 substrate binding site [chemical binding]; other site 1029825006268 active site 1029825006269 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1029825006270 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 1029825006271 dimer interface [polypeptide binding]; other site 1029825006272 active site 1029825006273 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 1029825006274 active site 1 [active] 1029825006275 dimer interface [polypeptide binding]; other site 1029825006276 active site 2 [active] 1029825006277 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1029825006278 metal binding site 2 [ion binding]; metal-binding site 1029825006279 putative DNA binding helix; other site 1029825006280 metal binding site 1 [ion binding]; metal-binding site 1029825006281 dimer interface [polypeptide binding]; other site 1029825006282 structural Zn2+ binding site [ion binding]; other site 1029825006283 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1029825006284 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1029825006285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1029825006286 Bacterial SH3 domain; Region: SH3_4; pfam06347 1029825006287 Bacterial SH3 domain; Region: SH3_4; pfam06347 1029825006288 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1029825006289 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1029825006290 dimerization interface [polypeptide binding]; other site 1029825006291 ligand binding site [chemical binding]; other site 1029825006292 NADP binding site [chemical binding]; other site 1029825006293 catalytic site [active] 1029825006294 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1029825006295 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1029825006296 NlpC/P60 family; Region: NLPC_P60; cl17555 1029825006297 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1029825006298 MarR family; Region: MarR; pfam01047 1029825006299 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1029825006300 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 1029825006301 interface (dimer of trimers) [polypeptide binding]; other site 1029825006302 Substrate-binding/catalytic site; other site 1029825006303 Zn-binding sites [ion binding]; other site 1029825006304 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1029825006305 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1029825006306 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1029825006307 DNA binding site [nucleotide binding] 1029825006308 catalytic residue [active] 1029825006309 H2TH interface [polypeptide binding]; other site 1029825006310 putative catalytic residues [active] 1029825006311 turnover-facilitating residue; other site 1029825006312 intercalation triad [nucleotide binding]; other site 1029825006313 8OG recognition residue [nucleotide binding]; other site 1029825006314 putative reading head residues; other site 1029825006315 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1029825006316 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1029825006317 enoyl-CoA hydratase; Provisional; Region: PRK05862 1029825006318 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 1029825006319 substrate binding site [chemical binding]; other site 1029825006320 oxyanion hole (OAH) forming residues; other site 1029825006321 trimer interface [polypeptide binding]; other site 1029825006322 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1029825006323 replication initiation protein RepC; Provisional; Region: PRK13824 1029825006324 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1029825006325 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1029825006326 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1029825006327 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 1029825006328 substrate binding site [chemical binding]; other site 1029825006329 dimer interface [polypeptide binding]; other site 1029825006330 ATP binding site [chemical binding]; other site 1029825006331 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1029825006332 active site 1029825006333 tetramer interface [polypeptide binding]; other site 1029825006334 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1029825006335 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1029825006336 TM-ABC transporter signature motif; other site 1029825006337 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825006338 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1029825006339 TM-ABC transporter signature motif; other site 1029825006340 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1029825006341 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1029825006342 Walker A/P-loop; other site 1029825006343 ATP binding site [chemical binding]; other site 1029825006344 Q-loop/lid; other site 1029825006345 ABC transporter signature motif; other site 1029825006346 Walker B; other site 1029825006347 D-loop; other site 1029825006348 H-loop/switch region; other site 1029825006349 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1029825006350 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1029825006351 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1029825006352 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1029825006353 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1029825006354 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 1029825006355 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1029825006356 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1029825006357 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1029825006358 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 1029825006359 putative NAD(P) binding site [chemical binding]; other site 1029825006360 active site 1029825006361 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 1029825006362 hydrophobic substrate binding pocket; other site 1029825006363 Isochorismatase family; Region: Isochorismatase; pfam00857 1029825006364 active site 1029825006365 conserved cis-peptide bond; other site 1029825006366 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1029825006367 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 1029825006368 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1029825006369 acyl-activating enzyme (AAE) consensus motif; other site 1029825006370 active site 1029825006371 AMP binding site [chemical binding]; other site 1029825006372 substrate binding site [chemical binding]; other site 1029825006373 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1029825006374 isochorismate synthases; Region: isochor_syn; TIGR00543 1029825006375 Condensation domain; Region: Condensation; pfam00668 1029825006376 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1029825006377 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 1029825006378 Moco binding site; other site 1029825006379 metal coordination site [ion binding]; other site 1029825006380 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1029825006381 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1029825006382 pentapeptide MXKDX repeat protein; Region: penta_MxKDx; TIGR02953 1029825006383 RNA polymerase sigma factor; Provisional; Region: PRK12539 1029825006384 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029825006385 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1029825006386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4944 1029825006387 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1029825006388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825006389 DNA-binding site [nucleotide binding]; DNA binding site 1029825006390 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1029825006391 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1029825006392 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1029825006393 putative ligand binding site [chemical binding]; other site 1029825006394 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1029825006395 TM-ABC transporter signature motif; other site 1029825006396 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1029825006397 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1029825006398 TM-ABC transporter signature motif; other site 1029825006399 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1029825006400 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1029825006401 Walker A/P-loop; other site 1029825006402 ATP binding site [chemical binding]; other site 1029825006403 Q-loop/lid; other site 1029825006404 ABC transporter signature motif; other site 1029825006405 Walker B; other site 1029825006406 D-loop; other site 1029825006407 H-loop/switch region; other site 1029825006408 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1029825006409 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1029825006410 Walker A/P-loop; other site 1029825006411 ATP binding site [chemical binding]; other site 1029825006412 Q-loop/lid; other site 1029825006413 ABC transporter signature motif; other site 1029825006414 Walker B; other site 1029825006415 D-loop; other site 1029825006416 H-loop/switch region; other site 1029825006417 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1029825006418 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029825006419 active site 1029825006420 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1029825006421 classical (c) SDRs; Region: SDR_c; cd05233 1029825006422 NAD(P) binding site [chemical binding]; other site 1029825006423 active site 1029825006424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029825006425 active site 1029825006426 potential frameshift: common BLAST hit: gi|376270582|ref|YP_005113627.1| dehydrogenase E1 component 1029825006427 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1029825006428 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1029825006429 tetramer interface [polypeptide binding]; other site 1029825006430 TPP-binding site [chemical binding]; other site 1029825006431 heterodimer interface [polypeptide binding]; other site 1029825006432 phosphorylation loop region [posttranslational modification] 1029825006433 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1029825006434 PYR/PP interface [polypeptide binding]; other site 1029825006435 TPP binding site [chemical binding]; other site 1029825006436 dimer interface [polypeptide binding]; other site 1029825006437 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1029825006438 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1029825006439 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1029825006440 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 1029825006441 E3 interaction surface; other site 1029825006442 lipoyl attachment site [posttranslational modification]; other site 1029825006443 e3 binding domain; Region: E3_binding; pfam02817 1029825006444 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1029825006445 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1029825006446 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1029825006447 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1029825006448 shikimate binding site; other site 1029825006449 NAD(P) binding site [chemical binding]; other site 1029825006450 magnesium-transporting ATPase; Provisional; Region: PRK15122 1029825006451 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1029825006452 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1029825006453 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1029825006454 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1029825006455 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1029825006456 MgtC family; Region: MgtC; pfam02308 1029825006457 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 1029825006458 ATP binding site [chemical binding]; other site 1029825006459 Mg2+ binding site [ion binding]; other site 1029825006460 G-X-G motif; other site 1029825006461 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1029825006462 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 1029825006463 active site 1029825006464 phosphorylation site [posttranslational modification] 1029825006465 intermolecular recognition site; other site 1029825006466 dimerization interface [polypeptide binding]; other site 1029825006467 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 1029825006468 dimerization interface [polypeptide binding]; other site 1029825006469 DNA binding residues [nucleotide binding] 1029825006470 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 1029825006471 Response regulator receiver domain; Region: Response_reg; pfam00072 1029825006472 active site 1029825006473 phosphorylation site [posttranslational modification] 1029825006474 intermolecular recognition site; other site 1029825006475 dimerization interface [polypeptide binding]; other site 1029825006476 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 1029825006477 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 1029825006478 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1029825006479 active site 1029825006480 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1029825006481 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1029825006482 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1029825006483 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1029825006484 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1029825006485 putative dimer interface [polypeptide binding]; other site 1029825006486 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1029825006487 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 1029825006488 tetramer interface [polypeptide binding]; other site 1029825006489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825006490 catalytic residue [active] 1029825006491 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1029825006492 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1029825006493 active site 1029825006494 dimer interface [polypeptide binding]; other site 1029825006495 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1029825006496 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1029825006497 active site 1029825006498 FMN binding site [chemical binding]; other site 1029825006499 substrate binding site [chemical binding]; other site 1029825006500 3Fe-4S cluster binding site [ion binding]; other site 1029825006501 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1029825006502 domain interface; other site 1029825006503 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1029825006504 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1029825006505 SGNH_peri2; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri2; cd01829 1029825006506 active site 1029825006507 catalytic triad [active] 1029825006508 oxyanion hole [active] 1029825006509 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1029825006510 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1029825006511 ligand binding site [chemical binding]; other site 1029825006512 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1029825006513 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 1029825006514 ATP binding site [chemical binding]; other site 1029825006515 Walker A motif; other site 1029825006516 hexamer interface [polypeptide binding]; other site 1029825006517 Walker B motif; other site 1029825006518 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1029825006519 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1029825006520 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1029825006521 VirB7 interaction site; other site 1029825006522 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1029825006523 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1029825006524 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1029825006525 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1029825006526 Type IV secretion system proteins; Region: T4SS; pfam07996 1029825006527 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 1029825006528 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1029825006529 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 1029825006530 TrbC/VIRB2 family; Region: TrbC; pfam04956 1029825006531 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 1029825006532 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1029825006533 catalytic residue [active] 1029825006534 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1029825006535 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 1029825006536 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1029825006537 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1029825006538 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1029825006539 active site 1029825006540 tetramer interface; other site 1029825006541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 1029825006542 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1029825006543 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1029825006544 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 1029825006545 putative active site [active] 1029825006546 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 1029825006547 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1029825006548 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1029825006549 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1029825006550 ferrochelatase; Reviewed; Region: hemH; PRK00035 1029825006551 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 1029825006552 C-terminal domain interface [polypeptide binding]; other site 1029825006553 active site 1029825006554 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 1029825006555 active site 1029825006556 N-terminal domain interface [polypeptide binding]; other site 1029825006557 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 1029825006558 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 1029825006559 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 1029825006560 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 1029825006561 hypothetical protein; Provisional; Region: PRK07546 1029825006562 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1029825006563 substrate-cofactor binding pocket; other site 1029825006564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825006565 homodimer interface [polypeptide binding]; other site 1029825006566 catalytic residue [active] 1029825006567 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1029825006568 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1029825006569 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1029825006570 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1029825006571 active site 1029825006572 Zn binding site [ion binding]; other site 1029825006573 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1029825006574 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 1029825006575 active site 1029825006576 phosphorylation site [posttranslational modification] 1029825006577 intermolecular recognition site; other site 1029825006578 dimerization interface [polypeptide binding]; other site 1029825006579 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 1029825006580 Walker A motif; other site 1029825006581 ATP binding site [chemical binding]; other site 1029825006582 Walker B motif; other site 1029825006583 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1029825006584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1029825006585 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 1029825006586 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1029825006587 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1029825006588 active site 1029825006589 intersubunit interface [polypeptide binding]; other site 1029825006590 catalytic residue [active] 1029825006591 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 1029825006592 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1029825006593 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1029825006594 active site residue [active] 1029825006595 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1029825006596 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1029825006597 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 1029825006598 dimer interface [polypeptide binding]; other site 1029825006599 conserved gate region; other site 1029825006600 putative PBP binding loops; other site 1029825006601 ABC-ATPase subunit interface; other site 1029825006602 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1029825006603 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825006604 Walker A/P-loop; other site 1029825006605 ATP binding site [chemical binding]; other site 1029825006606 Q-loop/lid; other site 1029825006607 ABC transporter signature motif; other site 1029825006608 Walker B; other site 1029825006609 D-loop; other site 1029825006610 H-loop/switch region; other site 1029825006611 TOBE domain; Region: TOBE; cl01440 1029825006612 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1029825006613 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1029825006614 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 1029825006615 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825006616 LysR family transcriptional regulator; Provisional; Region: PRK14997 1029825006617 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 1029825006618 putative effector binding pocket; other site 1029825006619 dimerization interface [polypeptide binding]; other site 1029825006620 amidase; Provisional; Region: PRK08310 1029825006621 indole-3-acetamide amidohydrolase; Region: PLN02722 1029825006622 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1029825006623 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1029825006624 dimer interface [polypeptide binding]; other site 1029825006625 active site 1029825006626 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1029825006627 catalytic residues [active] 1029825006628 substrate binding site [chemical binding]; other site 1029825006629 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1029825006630 Chain length determinant protein; Region: Wzz; pfam02706 1029825006631 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1029825006632 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 1029825006633 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1029825006634 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1029825006635 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1029825006636 active site 1029825006637 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1029825006638 O-Antigen ligase; Region: Wzy_C; pfam04932 1029825006639 potential frameshift: common BLAST hit: gi|376278097|ref|YP_005108130.1| Gfo/Idh/MocA family oxidoreductase 1029825006640 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825006641 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825006642 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825006643 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825006644 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1029825006645 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1029825006646 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1029825006647 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1029825006648 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1029825006649 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825006650 Walker A/P-loop; other site 1029825006651 ATP binding site [chemical binding]; other site 1029825006652 Q-loop/lid; other site 1029825006653 ABC transporter signature motif; other site 1029825006654 Walker B; other site 1029825006655 D-loop; other site 1029825006656 H-loop/switch region; other site 1029825006657 TOBE domain; Region: TOBE_2; pfam08402 1029825006658 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1029825006659 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 1029825006660 dimer interface [polypeptide binding]; other site 1029825006661 conserved gate region; other site 1029825006662 putative PBP binding loops; other site 1029825006663 ABC-ATPase subunit interface; other site 1029825006664 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 1029825006665 dimer interface [polypeptide binding]; other site 1029825006666 conserved gate region; other site 1029825006667 putative PBP binding loops; other site 1029825006668 ABC-ATPase subunit interface; other site 1029825006669 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1029825006670 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1029825006671 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1029825006672 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 1029825006673 putative substrate translocation pore; other site 1029825006674 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1029825006675 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825006676 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825006677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1029825006678 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1029825006679 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1029825006680 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1029825006681 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 1029825006682 DNA binding residues [nucleotide binding] 1029825006683 dimerization interface [polypeptide binding]; other site 1029825006684 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 1029825006685 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1029825006686 FliG C-terminal domain; Region: FliG_C; pfam01706 1029825006687 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 1029825006688 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 1029825006689 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 1029825006690 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1029825006691 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1029825006692 flagellar motor protein MotA; Validated; Region: PRK09110 1029825006693 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1029825006694 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1029825006695 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 1029825006696 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1029825006697 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1029825006698 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 1029825006699 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 1029825006700 Walker A motif; other site 1029825006701 ATP binding site [chemical binding]; other site 1029825006702 Walker B motif; other site 1029825006703 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 1029825006704 active site 1029825006705 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1029825006706 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1029825006707 Ligand binding site; other site 1029825006708 Putative Catalytic site; other site 1029825006709 DXD motif; other site 1029825006710 Peptidase family M48; Region: Peptidase_M48; cl12018 1029825006711 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 1029825006712 putative active site [active] 1029825006713 YdjC motif; other site 1029825006714 Mg binding site [ion binding]; other site 1029825006715 putative homodimer interface [polypeptide binding]; other site 1029825006716 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1029825006717 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1029825006718 Helix-turn-helix domain; Region: HTH_18; pfam12833 1029825006719 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825006720 Transposase; Region: HTH_Tnp_1; cl17663 1029825006721 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 1029825006722 D-galactonate transporter; Region: 2A0114; TIGR00893 1029825006723 putative substrate translocation pore; other site 1029825006724 putative aldolase; Validated; Region: PRK08130 1029825006725 intersubunit interface [polypeptide binding]; other site 1029825006726 active site 1029825006727 Zn2+ binding site [ion binding]; other site 1029825006728 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1029825006729 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1029825006730 putative NAD(P) binding site [chemical binding]; other site 1029825006731 active site 1029825006732 putative substrate binding site [chemical binding]; other site 1029825006733 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1029825006734 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1029825006735 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1029825006736 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1029825006737 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; cl12060 1029825006738 Metal-binding active site; metal-binding site 1029825006739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1029825006740 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1029825006741 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 1029825006742 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 1029825006743 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1029825006744 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1029825006745 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 1029825006746 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 1029825006747 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1029825006748 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK06005 1029825006749 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 1029825006750 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1029825006751 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1029825006752 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1029825006753 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1029825006754 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1029825006755 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1029825006756 FliP family; Region: FliP; cl00593 1029825006757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4893 1029825006758 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1029825006759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825006760 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1029825006761 putative dimerization interface [polypeptide binding]; other site 1029825006762 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1029825006763 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1029825006764 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1029825006765 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1029825006766 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1029825006767 active site 2 [active] 1029825006768 active site 1 [active] 1029825006769 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1029825006770 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1029825006771 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1029825006772 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1029825006773 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1029825006774 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1029825006775 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1029825006776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1029825006777 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1029825006778 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825006779 DNA-binding site [nucleotide binding]; DNA binding site 1029825006780 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1029825006781 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825006782 transcriptional activator TtdR; Provisional; Region: PRK09801 1029825006783 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 1029825006784 putative effector binding pocket; other site 1029825006785 dimerization interface [polypeptide binding]; other site 1029825006786 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1029825006787 FAD binding domain; Region: FAD_binding_4; pfam01565 1029825006788 FAD binding domain; Region: FAD_binding_4; pfam01565 1029825006789 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1029825006790 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1029825006791 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 1029825006792 Cysteine-rich domain; Region: CCG; pfam02754 1029825006793 Cysteine-rich domain; Region: CCG; pfam02754 1029825006794 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 1029825006795 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1029825006796 active site 1029825006797 catalytic tetrad [active] 1029825006798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1029825006799 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1029825006800 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1029825006801 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1029825006802 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 1029825006803 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 1029825006804 dimer interface [polypeptide binding]; other site 1029825006805 motif 1; other site 1029825006806 motif 2; other site 1029825006807 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 1029825006808 active site 1029825006809 motif 3; other site 1029825006810 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 1029825006811 anticodon binding site; other site 1029825006812 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 1029825006813 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 1029825006814 motif 1; other site 1029825006815 dimer interface [polypeptide binding]; other site 1029825006816 active site 1029825006817 motif 2; other site 1029825006818 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 1029825006819 active site 1029825006820 motif 3; other site 1029825006821 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 1029825006822 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1029825006823 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1029825006824 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 1029825006825 putative substrate translocation pore; other site 1029825006826 Predicted membrane protein [Function unknown]; Region: COG2259 1029825006827 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1029825006828 Class II fumarases; Region: Fumarase_classII; cd01362 1029825006829 active site 1029825006830 tetramer interface [polypeptide binding]; other site 1029825006831 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1029825006832 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 1029825006833 ring oligomerisation interface [polypeptide binding]; other site 1029825006834 ATP/Mg binding site [chemical binding]; other site 1029825006835 stacking interactions; other site 1029825006836 hinge regions; other site 1029825006837 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 1029825006838 oligomerisation interface [polypeptide binding]; other site 1029825006839 mobile loop; other site 1029825006840 roof hairpin; other site 1029825006841 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1029825006842 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 1029825006843 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 1029825006844 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1029825006845 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1029825006846 active site 1029825006847 Riboflavin kinase; Region: Flavokinase; smart00904 1029825006848 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1029825006849 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029825006850 active site 1029825006851 HIGH motif; other site 1029825006852 nucleotide binding site [chemical binding]; other site 1029825006853 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1029825006854 active site 1029825006855 KMSKS motif; other site 1029825006856 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1029825006857 tRNA binding surface [nucleotide binding]; other site 1029825006858 anticodon binding site; other site 1029825006859 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1029825006860 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 1029825006861 nucleoside/Zn binding site; other site 1029825006862 dimer interface [polypeptide binding]; other site 1029825006863 catalytic motif [active] 1029825006864 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1029825006865 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 1029825006866 RNA binding surface [nucleotide binding]; other site 1029825006867 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1029825006868 active site 1029825006869 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1029825006870 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 1029825006871 S-adenosylmethionine binding site [chemical binding]; other site 1029825006872 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1029825006873 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1029825006874 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1029825006875 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1029825006876 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1029825006877 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1029825006878 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1029825006879 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1029825006880 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1029825006881 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1029825006882 TrkA-N domain; Region: TrkA_N; pfam02254 1029825006883 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1029825006884 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1029825006885 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 1029825006886 active site 1029825006887 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 1029825006888 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1029825006889 putative acyl-acceptor binding pocket; other site 1029825006890 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1029825006891 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1029825006892 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 1029825006893 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1029825006894 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1029825006895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 1029825006896 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1029825006897 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 1029825006898 ATP binding site [chemical binding]; other site 1029825006899 Mg2+ binding site [ion binding]; other site 1029825006900 G-X-G motif; other site 1029825006901 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1029825006902 ATP binding site [chemical binding]; other site 1029825006903 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1029825006904 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 1029825006905 putative substrate translocation pore; other site 1029825006906 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1029825006907 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1029825006908 active site 1029825006909 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1029825006910 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1029825006911 Bacterial transcriptional regulator; Region: IclR; pfam01614 1029825006912 enoyl-CoA hydratase; Provisional; Region: PRK08138 1029825006913 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 1029825006914 substrate binding site [chemical binding]; other site 1029825006915 oxyanion hole (OAH) forming residues; other site 1029825006916 trimer interface [polypeptide binding]; other site 1029825006917 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1029825006918 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1029825006919 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1029825006920 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1029825006921 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1029825006922 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1029825006923 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1029825006924 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 1029825006925 putative active site [active] 1029825006926 putative FMN binding site [chemical binding]; other site 1029825006927 putative substrate binding site [chemical binding]; other site 1029825006928 putative catalytic residue [active] 1029825006929 sensor protein QseC; Provisional; Region: PRK10337 1029825006930 HAMP domain; Region: HAMP; pfam00672 1029825006931 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 1029825006932 dimer interface [polypeptide binding]; other site 1029825006933 phosphorylation site [posttranslational modification] 1029825006934 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 1029825006935 Mg2+ binding site [ion binding]; other site 1029825006936 G-X-G motif; other site 1029825006937 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029825006938 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 1029825006939 active site 1029825006940 phosphorylation site [posttranslational modification] 1029825006941 intermolecular recognition site; other site 1029825006942 dimerization interface [polypeptide binding]; other site 1029825006943 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 1029825006944 DNA binding site [nucleotide binding] 1029825006945 Uncharacterized conserved protein [Function unknown]; Region: COG5591 1029825006946 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1029825006947 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1029825006948 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1029825006949 Flavodoxin; Region: Flavodoxin_1; pfam00258 1029825006950 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_like2; cd06201 1029825006951 FAD binding pocket [chemical binding]; other site 1029825006952 FAD binding motif [chemical binding]; other site 1029825006953 catalytic residues [active] 1029825006954 NAD binding pocket [chemical binding]; other site 1029825006955 phosphate binding motif [ion binding]; other site 1029825006956 beta-alpha-beta structure motif; other site 1029825006957 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1029825006958 ApbE family; Region: ApbE; pfam02424 1029825006959 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1029825006960 GAF domain; Region: GAF; pfam01590 1029825006961 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1029825006962 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1029825006963 metal binding site [ion binding]; metal-binding site 1029825006964 active site 1029825006965 I-site; other site 1029825006966 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1029825006967 EamA-like transporter family; Region: EamA; pfam00892 1029825006968 EamA-like transporter family; Region: EamA; cl17759 1029825006969 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1029825006970 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825006971 DNA-binding site [nucleotide binding]; DNA binding site 1029825006972 FCD domain; Region: FCD; pfam07729 1029825006973 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1029825006974 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1029825006975 inhibitor site; inhibition site 1029825006976 active site 1029825006977 dimer interface [polypeptide binding]; other site 1029825006978 catalytic residue [active] 1029825006979 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1029825006980 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1029825006981 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 1029825006982 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1029825006983 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 1029825006984 Cytochrome c; Region: Cytochrom_C; pfam00034 1029825006985 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1029825006986 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1029825006987 Binuclear center (active site) [active] 1029825006988 K-pathway; other site 1029825006989 Putative proton exit pathway; other site 1029825006990 MoxR-like ATPases [General function prediction only]; Region: COG0714 1029825006991 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 1029825006992 Walker A motif; other site 1029825006993 ATP binding site [chemical binding]; other site 1029825006994 Walker B motif; other site 1029825006995 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1029825006996 potential frameshift: common BLAST hit: gi|376271486|ref|YP_005114531.1| nitric-oxide reductase NorD protein 1029825006997 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1029825006998 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1029825006999 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1029825007000 metal ion-dependent adhesion site (MIDAS); other site 1029825007001 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 1029825007002 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1029825007003 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 1029825007004 CPxP motif; other site 1029825007005 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1029825007006 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1029825007007 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1029825007008 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1029825007009 nucleophilic elbow; other site 1029825007010 catalytic triad; other site 1029825007011 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1029825007012 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1029825007013 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1029825007014 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1029825007015 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1029825007016 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 1029825007017 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1029825007018 ligand binding site [chemical binding]; other site 1029825007019 flexible hinge region; other site 1029825007020 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 1029825007021 putative switch regulator; other site 1029825007022 non-specific DNA interactions [nucleotide binding]; other site 1029825007023 DNA binding site [nucleotide binding] 1029825007024 sequence specific DNA binding site [nucleotide binding]; other site 1029825007025 putative cAMP binding site [chemical binding]; other site 1029825007026 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1029825007027 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1029825007028 DNA binding site [nucleotide binding] 1029825007029 domain linker motif; other site 1029825007030 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1029825007031 dimerization interface [polypeptide binding]; other site 1029825007032 ligand binding site [chemical binding]; other site 1029825007033 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1029825007034 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 1029825007035 putative ligand binding site [chemical binding]; other site 1029825007036 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1029825007037 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825007038 Walker A/P-loop; other site 1029825007039 ATP binding site [chemical binding]; other site 1029825007040 Q-loop/lid; other site 1029825007041 ABC transporter signature motif; other site 1029825007042 Walker B; other site 1029825007043 D-loop; other site 1029825007044 H-loop/switch region; other site 1029825007045 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1029825007046 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825007047 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 1029825007048 TM-ABC transporter signature motif; other site 1029825007049 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1029825007050 classical (c) SDRs; Region: SDR_c; cd05233 1029825007051 NAD(P) binding site [chemical binding]; other site 1029825007052 active site 1029825007053 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 1029825007054 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 1029825007055 N- and C-terminal domain interface [polypeptide binding]; other site 1029825007056 active site 1029825007057 MgATP binding site [chemical binding]; other site 1029825007058 catalytic site [active] 1029825007059 metal binding site [ion binding]; metal-binding site 1029825007060 carbohydrate binding site [chemical binding]; other site 1029825007061 putative homodimer interface [polypeptide binding]; other site 1029825007062 RES domain; Region: RES; smart00953 1029825007063 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1029825007064 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1029825007065 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1029825007066 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1029825007067 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1029825007068 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 1029825007069 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1029825007070 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1029825007071 potential frameshift: common BLAST hit: gi|376278253|ref|YP_005108286.1| nitrous-oxide reductase 1029825007072 nitrous-oxide reductase; Validated; Region: PRK02888 1029825007073 nitrous-oxide reductase; Validated; Region: PRK02888 1029825007074 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1029825007075 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 1029825007076 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1029825007077 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1029825007078 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1029825007079 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1029825007080 Walker A/P-loop; other site 1029825007081 ATP binding site [chemical binding]; other site 1029825007082 Q-loop/lid; other site 1029825007083 ABC transporter signature motif; other site 1029825007084 Walker B; other site 1029825007085 D-loop; other site 1029825007086 H-loop/switch region; other site 1029825007087 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1029825007088 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 1029825007089 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 1029825007090 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1029825007091 ApbE family; Region: ApbE; pfam02424 1029825007092 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1029825007093 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 1029825007094 ligand binding site [chemical binding]; other site 1029825007095 flexible hinge region; other site 1029825007096 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 1029825007097 putative switch regulator; other site 1029825007098 non-specific DNA interactions [nucleotide binding]; other site 1029825007099 DNA binding site [nucleotide binding] 1029825007100 sequence specific DNA binding site [nucleotide binding]; other site 1029825007101 putative cAMP binding site [chemical binding]; other site 1029825007102 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1029825007103 pseudoazurin; Region: pseudoazurin; TIGR02375 1029825007104 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 1029825007105 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1029825007106 NMT1-like family; Region: NMT1_2; pfam13379 1029825007107 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1029825007108 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 1029825007109 dimer interface [polypeptide binding]; other site 1029825007110 conserved gate region; other site 1029825007111 putative PBP binding loops; other site 1029825007112 ABC-ATPase subunit interface; other site 1029825007113 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1029825007114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825007115 ABC transporter signature motif; other site 1029825007116 Walker B; other site 1029825007117 D-loop; other site 1029825007118 H-loop/switch region; other site 1029825007119 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1029825007120 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825007121 Walker A/P-loop; other site 1029825007122 ATP binding site [chemical binding]; other site 1029825007123 Q-loop/lid; other site 1029825007124 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1029825007125 putative protease; Provisional; Region: PRK15447 1029825007126 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1029825007127 Peptidase family U32; Region: Peptidase_U32; pfam01136 1029825007128 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1029825007129 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1029825007130 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1029825007131 Flavoprotein; Region: Flavoprotein; pfam02441 1029825007132 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 1029825007133 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1029825007134 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1029825007135 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1029825007136 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1029825007137 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1029825007138 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; cl00470 1029825007139 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1029825007140 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1029825007141 [4Fe-4S] binding site [ion binding]; other site 1029825007142 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 1029825007143 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 1029825007144 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 1029825007145 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1029825007146 molybdopterin cofactor binding site; other site 1029825007147 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1029825007148 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 1029825007149 putative substrate translocation pore; other site 1029825007150 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1029825007151 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 1029825007152 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 1029825007153 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 1029825007154 ligand binding site [chemical binding]; other site 1029825007155 flexible hinge region; other site 1029825007156 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1029825007157 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1029825007158 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1029825007159 DNA binding site [nucleotide binding] 1029825007160 domain linker motif; other site 1029825007161 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1029825007162 ligand binding site [chemical binding]; other site 1029825007163 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1029825007164 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1029825007165 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1029825007166 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 1029825007167 dimer interface [polypeptide binding]; other site 1029825007168 conserved gate region; other site 1029825007169 putative PBP binding loops; other site 1029825007170 ABC-ATPase subunit interface; other site 1029825007171 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1029825007172 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 1029825007173 dimer interface [polypeptide binding]; other site 1029825007174 conserved gate region; other site 1029825007175 putative PBP binding loops; other site 1029825007176 ABC-ATPase subunit interface; other site 1029825007177 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1029825007178 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1029825007179 Walker A/P-loop; other site 1029825007180 ATP binding site [chemical binding]; other site 1029825007181 Q-loop/lid; other site 1029825007182 ABC transporter signature motif; other site 1029825007183 Walker B; other site 1029825007184 D-loop; other site 1029825007185 H-loop/switch region; other site 1029825007186 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 1029825007187 conserved cys residue [active] 1029825007188 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825007189 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825007190 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1029825007191 potential frameshift: common BLAST hit: gi|376278289|ref|YP_005108322.1| transporter, putative 1029825007192 Transmembrane secretion effector; Region: MFS_3; pfam05977 1029825007193 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 1029825007194 Transmembrane secretion effector; Region: MFS_3; pfam05977 1029825007195 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1029825007196 catalytic residues [active] 1029825007197 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1029825007198 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1029825007199 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1029825007200 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1029825007201 active site 1029825007202 dimer interface [polypeptide binding]; other site 1029825007203 catalytic residues [active] 1029825007204 effector binding site; other site 1029825007205 R2 peptide binding site; other site 1029825007206 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1029825007207 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1029825007208 dimer interface [polypeptide binding]; other site 1029825007209 putative radical transfer pathway; other site 1029825007210 diiron center [ion binding]; other site 1029825007211 tyrosyl radical; other site 1029825007212 septum formation inhibitor; Reviewed; Region: minC; PRK05177 1029825007213 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1029825007214 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1029825007215 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1029825007216 Switch I; other site 1029825007217 Switch II; other site 1029825007218 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1029825007219 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 1029825007220 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1029825007221 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1029825007222 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1029825007223 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1029825007224 Walker A/P-loop; other site 1029825007225 ATP binding site [chemical binding]; other site 1029825007226 Q-loop/lid; other site 1029825007227 ABC transporter signature motif; other site 1029825007228 Walker B; other site 1029825007229 D-loop; other site 1029825007230 H-loop/switch region; other site 1029825007231 TOBE domain; Region: TOBE_2; pfam08402 1029825007232 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 1029825007233 dimer interface [polypeptide binding]; other site 1029825007234 conserved gate region; other site 1029825007235 putative PBP binding loops; other site 1029825007236 ABC-ATPase subunit interface; other site 1029825007237 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1029825007238 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 1029825007239 dimer interface [polypeptide binding]; other site 1029825007240 conserved gate region; other site 1029825007241 putative PBP binding loops; other site 1029825007242 ABC-ATPase subunit interface; other site 1029825007243 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1029825007244 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1029825007245 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1029825007246 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825007247 Predicted membrane protein [Function unknown]; Region: COG4803 1029825007248 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1029825007249 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1029825007250 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029825007251 catalytic residue [active] 1029825007252 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1029825007253 Glutaminase; Region: Glutaminase; cl00907 1029825007254 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1029825007255 Glutaminase; Region: Glutaminase; cl00907 1029825007256 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1029825007257 acid-resistance protein; Provisional; Region: PRK10208 1029825007258 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1029825007259 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1029825007260 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1029825007261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825007262 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 1029825007263 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1029825007264 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1029825007265 Substrate binding site; other site 1029825007266 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1029825007267 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1029825007268 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 1029825007269 active site 1029825007270 substrate binding site [chemical binding]; other site 1029825007271 metal binding site [ion binding]; metal-binding site 1029825007272 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 1029825007273 putative active site pocket [active] 1029825007274 cleavage site 1029825007275 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1029825007276 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 1029825007277 putative ion selectivity filter; other site 1029825007278 putative pore gating glutamate residue; other site 1029825007279 putative H+/Cl- coupling transport residue; other site 1029825007280 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1029825007281 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 1029825007282 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 1029825007283 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 1029825007284 active site 1029825007285 Cytochrome c [Energy production and conversion]; Region: COG3258 1029825007286 Cytochrome c; Region: Cytochrom_C; pfam00034 1029825007287 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1029825007288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825007289 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 1029825007290 dimerization interface [polypeptide binding]; other site 1029825007291 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1029825007292 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1029825007293 tetramer interface [polypeptide binding]; other site 1029825007294 heme binding pocket [chemical binding]; other site 1029825007295 NADPH binding site [chemical binding]; other site 1029825007296 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1029825007297 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1029825007298 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1029825007299 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 1029825007300 CoenzymeA binding site [chemical binding]; other site 1029825007301 subunit interaction site [polypeptide binding]; other site 1029825007302 PHB binding site; other site 1029825007303 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 1029825007304 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 1029825007305 GMP synthase; Reviewed; Region: guaA; PRK00074 1029825007306 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1029825007307 AMP/PPi binding site [chemical binding]; other site 1029825007308 candidate oxyanion hole; other site 1029825007309 catalytic triad [active] 1029825007310 potential glutamine specificity residues [chemical binding]; other site 1029825007311 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 1029825007312 ATP Binding subdomain [chemical binding]; other site 1029825007313 Ligand Binding sites [chemical binding]; other site 1029825007314 Dimerization subdomain; other site 1029825007315 Fe2+ transport protein; Region: Iron_transport; pfam10634 1029825007316 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1029825007317 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1029825007318 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1029825007319 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1029825007320 putative phosphoketolase; Provisional; Region: PRK05261 1029825007321 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1029825007322 TPP-binding site; other site 1029825007323 XFP C-terminal domain; Region: XFP_C; pfam09363 1029825007324 acetate kinase; Provisional; Region: PRK07058 1029825007325 propionate/acetate kinase; Provisional; Region: PRK12379 1029825007326 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1029825007327 Cytochrome P450; Region: p450; cl12078 1029825007328 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1029825007329 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825007330 DNA-binding site [nucleotide binding]; DNA binding site 1029825007331 FCD domain; Region: FCD; pfam07729 1029825007332 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1029825007333 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1029825007334 NAD(P) binding site [chemical binding]; other site 1029825007335 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1029825007336 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1029825007337 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825007338 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1029825007339 TM-ABC transporter signature motif; other site 1029825007340 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1029825007341 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1029825007342 TM-ABC transporter signature motif; other site 1029825007343 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1029825007344 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1029825007345 Walker A/P-loop; other site 1029825007346 ATP binding site [chemical binding]; other site 1029825007347 Q-loop/lid; other site 1029825007348 ABC transporter signature motif; other site 1029825007349 Walker B; other site 1029825007350 D-loop; other site 1029825007351 H-loop/switch region; other site 1029825007352 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1029825007353 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1029825007354 Walker A/P-loop; other site 1029825007355 ATP binding site [chemical binding]; other site 1029825007356 Q-loop/lid; other site 1029825007357 ABC transporter signature motif; other site 1029825007358 Walker B; other site 1029825007359 D-loop; other site 1029825007360 H-loop/switch region; other site 1029825007361 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1029825007362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029825007363 NAD(P) binding site [chemical binding]; other site 1029825007364 active site 1029825007365 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1029825007366 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1029825007367 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1029825007368 shikimate binding site; other site 1029825007369 NAD(P) binding site [chemical binding]; other site 1029825007370 choline dehydrogenase; Validated; Region: PRK02106 1029825007371 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1029825007372 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1029825007373 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1029825007374 tetramerization interface [polypeptide binding]; other site 1029825007375 NAD(P) binding site [chemical binding]; other site 1029825007376 catalytic residues [active] 1029825007377 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1029825007378 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1029825007379 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1029825007380 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 1029825007381 NAD binding site [chemical binding]; other site 1029825007382 catalytic Zn binding site [ion binding]; other site 1029825007383 substrate binding site [chemical binding]; other site 1029825007384 structural Zn binding site [ion binding]; other site 1029825007385 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825007386 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825007387 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825007388 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825007389 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1029825007390 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825007391 Walker A/P-loop; other site 1029825007392 ATP binding site [chemical binding]; other site 1029825007393 Q-loop/lid; other site 1029825007394 ABC transporter signature motif; other site 1029825007395 Walker B; other site 1029825007396 D-loop; other site 1029825007397 H-loop/switch region; other site 1029825007398 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1029825007399 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1029825007400 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825007401 Walker A/P-loop; other site 1029825007402 ATP binding site [chemical binding]; other site 1029825007403 Q-loop/lid; other site 1029825007404 ABC transporter signature motif; other site 1029825007405 Walker B; other site 1029825007406 D-loop; other site 1029825007407 H-loop/switch region; other site 1029825007408 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1029825007409 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1029825007410 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1029825007411 inhibitor site; inhibition site 1029825007412 active site 1029825007413 dimer interface [polypeptide binding]; other site 1029825007414 catalytic residue [active] 1029825007415 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1029825007416 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 1029825007417 dimer interface [polypeptide binding]; other site 1029825007418 conserved gate region; other site 1029825007419 putative PBP binding loops; other site 1029825007420 ABC-ATPase subunit interface; other site 1029825007421 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1029825007422 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 1029825007423 dimer interface [polypeptide binding]; other site 1029825007424 conserved gate region; other site 1029825007425 putative PBP binding loops; other site 1029825007426 ABC-ATPase subunit interface; other site 1029825007427 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1029825007428 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 1029825007429 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1029825007430 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825007431 DNA-binding site [nucleotide binding]; DNA binding site 1029825007432 FCD domain; Region: FCD; pfam07729 1029825007433 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1029825007434 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 1029825007435 putative active site cavity [active] 1029825007436 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1029825007437 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1029825007438 nucleotide binding site [chemical binding]; other site 1029825007439 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 1029825007440 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1029825007441 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 1029825007442 ligand binding site [chemical binding]; other site 1029825007443 flexible hinge region; other site 1029825007444 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 1029825007445 putative switch regulator; other site 1029825007446 non-specific DNA interactions [nucleotide binding]; other site 1029825007447 DNA binding site [nucleotide binding] 1029825007448 sequence specific DNA binding site [nucleotide binding]; other site 1029825007449 putative cAMP binding site [chemical binding]; other site 1029825007450 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1029825007451 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 1029825007452 DNA binding residues [nucleotide binding] 1029825007453 dimerization interface [polypeptide binding]; other site 1029825007454 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1029825007455 Chain length determinant protein; Region: Wzz; cl15801 1029825007456 AAA domain; Region: AAA_31; pfam13614 1029825007457 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1029825007458 G3 box; other site 1029825007459 Switch II region; other site 1029825007460 G4 box; other site 1029825007461 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1029825007462 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1029825007463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029825007464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029825007465 NAD(P) binding site [chemical binding]; other site 1029825007466 active site 1029825007467 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1029825007468 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1029825007469 NADP-binding site; other site 1029825007470 homotetramer interface [polypeptide binding]; other site 1029825007471 substrate binding site [chemical binding]; other site 1029825007472 homodimer interface [polypeptide binding]; other site 1029825007473 active site 1029825007474 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029825007475 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1029825007476 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029825007477 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1029825007478 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 1029825007479 putative ADP-binding pocket [chemical binding]; other site 1029825007480 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029825007481 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1029825007482 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 1029825007483 putative trimer interface [polypeptide binding]; other site 1029825007484 putative active site [active] 1029825007485 putative substrate binding site [chemical binding]; other site 1029825007486 putative CoA binding site [chemical binding]; other site 1029825007487 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1029825007488 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 1029825007489 putative active site [active] 1029825007490 potential frameshift: common BLAST hit: gi|225686236|ref|YP_002734208.1| Lipopolysaccharide core biosynthesis glycosyltransferase kdtX 1029825007491 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1029825007492 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1029825007493 putative metal binding site; other site 1029825007494 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1029825007495 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 1029825007496 Mg++ binding site [ion binding]; other site 1029825007497 putative catalytic motif [active] 1029825007498 substrate binding site [chemical binding]; other site 1029825007499 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1029825007500 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1029825007501 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1029825007502 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 1029825007503 active site 1029825007504 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 1029825007505 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1029825007506 potential frameshift: common BLAST hit: gi|256015215|ref|YP_003105224.1| glycosyl transferase, group 1 family protein 1029825007507 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 1029825007508 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 1029825007509 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029825007510 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 1029825007511 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 1029825007512 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1029825007513 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029825007514 catalytic residue [active] 1029825007515 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 1029825007516 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1029825007517 extended (e) SDRs; Region: SDR_e; cd08946 1029825007518 NAD(P) binding site [chemical binding]; other site 1029825007519 active site 1029825007520 substrate binding site [chemical binding]; other site 1029825007521 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 1029825007522 M28 Zn-Peptidases; Region: M28_like_3; cd05644 1029825007523 active site 1029825007524 metal binding site [ion binding]; metal-binding site 1029825007525 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1029825007526 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 1029825007527 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1029825007528 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 1029825007529 S-adenosylmethionine binding site [chemical binding]; other site 1029825007530 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 1029825007531 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1029825007532 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1029825007533 active site 1029825007534 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1029825007535 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1029825007536 potential frameshift: common BLAST hit: gi|340792174|ref|YP_004757638.1| glycerol kinase 1029825007537 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1029825007538 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1029825007539 nucleotide binding site [chemical binding]; other site 1029825007540 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1029825007541 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1029825007542 nucleotide binding site [chemical binding]; other site 1029825007543 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1029825007544 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 1029825007545 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1029825007546 putative substrate translocation pore; other site 1029825007547 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1029825007548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825007549 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 1029825007550 putative dimerization interface [polypeptide binding]; other site 1029825007551 putative substrate binding pocket [chemical binding]; other site 1029825007552 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1029825007553 SelR domain; Region: SelR; pfam01641 1029825007554 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 1029825007555 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1029825007556 active site 1029825007557 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1029825007558 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 1029825007559 dimer interface [polypeptide binding]; other site 1029825007560 active site 1029825007561 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1029825007562 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1029825007563 NAD binding site [chemical binding]; other site 1029825007564 homodimer interface [polypeptide binding]; other site 1029825007565 homotetramer interface [polypeptide binding]; other site 1029825007566 active site 1029825007567 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1029825007568 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1029825007569 active site 1029825007570 CoA binding site [chemical binding]; other site 1029825007571 AMP binding site [chemical binding]; other site 1029825007572 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1029825007573 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1029825007574 acyl-activating enzyme (AAE) consensus motif; other site 1029825007575 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1029825007576 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1029825007577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825007578 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1029825007579 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1029825007580 ligand binding site [chemical binding]; other site 1029825007581 NAD binding site [chemical binding]; other site 1029825007582 tetramer interface [polypeptide binding]; other site 1029825007583 catalytic site [active] 1029825007584 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1029825007585 L-serine binding site [chemical binding]; other site 1029825007586 ACT domain interface; other site 1029825007587 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 1029825007588 active site 1029825007589 catalytic residues [active] 1029825007590 metal binding site [ion binding]; metal-binding site 1029825007591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 1029825007592 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 1029825007593 dimerization interface [polypeptide binding]; other site 1029825007594 putative DNA binding site [nucleotide binding]; other site 1029825007595 putative Zn2+ binding site [ion binding]; other site 1029825007596 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1029825007597 Predicted transporter component [General function prediction only]; Region: COG2391 1029825007598 Predicted transporter component [General function prediction only]; Region: COG2391 1029825007599 Sulphur transport; Region: Sulf_transp; pfam04143 1029825007600 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1029825007601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825007602 DNA-binding site [nucleotide binding]; DNA binding site 1029825007603 FCD domain; Region: FCD; pfam07729 1029825007604 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1029825007605 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1029825007606 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 1029825007607 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1029825007608 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1029825007609 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1029825007610 Peptidase family M23; Region: Peptidase_M23; pfam01551 1029825007611 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825007612 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1029825007613 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1029825007614 Walker A/P-loop; other site 1029825007615 ATP binding site [chemical binding]; other site 1029825007616 Q-loop/lid; other site 1029825007617 ABC transporter signature motif; other site 1029825007618 Walker B; other site 1029825007619 D-loop; other site 1029825007620 H-loop/switch region; other site 1029825007621 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1029825007622 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1029825007623 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1029825007624 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1029825007625 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1029825007626 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 1029825007627 dimer interface [polypeptide binding]; other site 1029825007628 conserved gate region; other site 1029825007629 putative PBP binding loops; other site 1029825007630 ABC-ATPase subunit interface; other site 1029825007631 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1029825007632 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1029825007633 Walker A/P-loop; other site 1029825007634 ATP binding site [chemical binding]; other site 1029825007635 Q-loop/lid; other site 1029825007636 ABC transporter signature motif; other site 1029825007637 Walker B; other site 1029825007638 D-loop; other site 1029825007639 H-loop/switch region; other site 1029825007640 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 1029825007641 NMT1/THI5 like; Region: NMT1; pfam09084 1029825007642 substrate binding pocket [chemical binding]; other site 1029825007643 membrane-bound complex binding site; other site 1029825007644 hinge residues; other site 1029825007645 MarR family; Region: MarR_2; pfam12802 1029825007646 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 1029825007647 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1029825007648 putative substrate translocation pore; other site 1029825007649 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1029825007650 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1029825007651 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825007652 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825007653 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1029825007654 HAMP domain; Region: HAMP; pfam00672 1029825007655 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 1029825007656 dimer interface [polypeptide binding]; other site 1029825007657 phosphorylation site [posttranslational modification] 1029825007658 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 1029825007659 ATP binding site [chemical binding]; other site 1029825007660 Mg2+ binding site [ion binding]; other site 1029825007661 G-X-G motif; other site 1029825007662 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029825007663 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 1029825007664 active site 1029825007665 phosphorylation site [posttranslational modification] 1029825007666 intermolecular recognition site; other site 1029825007667 dimerization interface [polypeptide binding]; other site 1029825007668 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 1029825007669 DNA binding site [nucleotide binding] 1029825007670 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1029825007671 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1029825007672 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029825007673 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1029825007674 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1029825007675 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1029825007676 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029825007677 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1029825007678 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1029825007679 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1029825007680 potential frameshift: common BLAST hit: gi|376276807|ref|YP_005152868.1| glycosyl hydrolase family protein 1029825007681 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1029825007682 active site 1029825007683 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1029825007684 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 1029825007685 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1029825007686 proposed active site lysine [active] 1029825007687 conserved cys residue [active] 1029825007688 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 1029825007689 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 1029825007690 dimer interface [polypeptide binding]; other site 1029825007691 active site 1029825007692 CoA binding pocket [chemical binding]; other site 1029825007693 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1029825007694 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 1029825007695 inhibitor-cofactor binding pocket; inhibition site 1029825007696 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825007697 catalytic residue [active] 1029825007698 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1029825007699 AAA domain; Region: AAA_26; pfam13500 1029825007700 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1029825007701 hypothetical protein; Provisional; Region: PRK07505 1029825007702 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029825007703 catalytic residue [active] 1029825007704 biotin synthase; Region: bioB; TIGR00433 1029825007705 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 1029825007706 FeS/SAM binding site; other site 1029825007707 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1029825007708 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 1029825007709 MPT binding site; other site 1029825007710 trimer interface [polypeptide binding]; other site 1029825007711 Nitroreductase-like family 4. 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_4; cd02140 1029825007712 dimer interface [polypeptide binding]; other site 1029825007713 FMN binding site [chemical binding]; other site 1029825007714 potential frameshift: common BLAST hit: gi|376271280|ref|YP_005114325.1| hydroxyacylglutathione hydrolase 1029825007715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1029825007716 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1029825007717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1029825007718 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1029825007719 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1029825007720 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1029825007721 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1029825007722 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 1029825007723 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1029825007724 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1029825007725 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1029825007726 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12596 1029825007727 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1029825007728 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1029825007729 Predicted transcriptional regulators [Transcription]; Region: COG1510 1029825007730 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 1029825007731 dimerization interface [polypeptide binding]; other site 1029825007732 putative DNA binding site [nucleotide binding]; other site 1029825007733 putative Zn2+ binding site [ion binding]; other site 1029825007734 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 1029825007735 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1029825007736 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1029825007737 Walker A/P-loop; other site 1029825007738 ATP binding site [chemical binding]; other site 1029825007739 Q-loop/lid; other site 1029825007740 ABC transporter signature motif; other site 1029825007741 Walker B; other site 1029825007742 D-loop; other site 1029825007743 H-loop/switch region; other site 1029825007744 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 1029825007745 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825007746 Walker A/P-loop; other site 1029825007747 ATP binding site [chemical binding]; other site 1029825007748 Q-loop/lid; other site 1029825007749 ABC transporter signature motif; other site 1029825007750 Walker B; other site 1029825007751 D-loop; other site 1029825007752 H-loop/switch region; other site 1029825007753 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1029825007754 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1029825007755 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1029825007756 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1029825007757 Predicted outer membrane lipoprotein [Function unknown]; Region: COG4890 1029825007758 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1029825007759 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825007760 DNA-binding site [nucleotide binding]; DNA binding site 1029825007761 UTRA domain; Region: UTRA; pfam07702 1029825007762 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1029825007763 nucleotide binding site [chemical binding]; other site 1029825007764 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1029825007765 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1029825007766 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1029825007767 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1029825007768 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1029825007769 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 1029825007770 dimer interface [polypeptide binding]; other site 1029825007771 conserved gate region; other site 1029825007772 putative PBP binding loops; other site 1029825007773 ABC-ATPase subunit interface; other site 1029825007774 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1029825007775 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 1029825007776 dimer interface [polypeptide binding]; other site 1029825007777 conserved gate region; other site 1029825007778 putative PBP binding loops; other site 1029825007779 ABC-ATPase subunit interface; other site 1029825007780 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825007781 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825007782 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1029825007783 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1029825007784 Walker A/P-loop; other site 1029825007785 ATP binding site [chemical binding]; other site 1029825007786 Q-loop/lid; other site 1029825007787 ABC transporter signature motif; other site 1029825007788 Walker B; other site 1029825007789 D-loop; other site 1029825007790 H-loop/switch region; other site 1029825007791 TOBE domain; Region: TOBE_2; pfam08402 1029825007792 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1029825007793 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1029825007794 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1029825007795 tetramer interface [polypeptide binding]; other site 1029825007796 TPP-binding site [chemical binding]; other site 1029825007797 heterodimer interface [polypeptide binding]; other site 1029825007798 phosphorylation loop region [posttranslational modification] 1029825007799 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1029825007800 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1029825007801 alpha subunit interface [polypeptide binding]; other site 1029825007802 TPP binding site [chemical binding]; other site 1029825007803 heterodimer interface [polypeptide binding]; other site 1029825007804 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1029825007805 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1029825007806 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 1029825007807 E3 interaction surface; other site 1029825007808 lipoyl attachment site [posttranslational modification]; other site 1029825007809 e3 binding domain; Region: E3_binding; pfam02817 1029825007810 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1029825007811 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1029825007812 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029825007813 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1029825007814 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1029825007815 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1029825007816 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1029825007817 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1029825007818 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 1029825007819 homodimer interface [polypeptide binding]; other site 1029825007820 homotetramer interface [polypeptide binding]; other site 1029825007821 active site pocket [active] 1029825007822 cleavage site 1029825007823 benzoate transport; Region: 2A0115; TIGR00895 1029825007824 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 1029825007825 putative substrate translocation pore; other site 1029825007826 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1029825007827 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1029825007828 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825007829 Walker A/P-loop; other site 1029825007830 ATP binding site [chemical binding]; other site 1029825007831 Q-loop/lid; other site 1029825007832 ABC transporter signature motif; other site 1029825007833 Walker B; other site 1029825007834 D-loop; other site 1029825007835 H-loop/switch region; other site 1029825007836 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1029825007837 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825007838 Walker A/P-loop; other site 1029825007839 ATP binding site [chemical binding]; other site 1029825007840 Q-loop/lid; other site 1029825007841 ABC transporter signature motif; other site 1029825007842 Walker B; other site 1029825007843 D-loop; other site 1029825007844 H-loop/switch region; other site 1029825007845 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1029825007846 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1029825007847 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 1029825007848 dimer interface [polypeptide binding]; other site 1029825007849 conserved gate region; other site 1029825007850 ABC-ATPase subunit interface; other site 1029825007851 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1029825007852 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 1029825007853 dimer interface [polypeptide binding]; other site 1029825007854 conserved gate region; other site 1029825007855 putative PBP binding loops; other site 1029825007856 ABC-ATPase subunit interface; other site 1029825007857 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1029825007858 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1029825007859 peptide binding site [polypeptide binding]; other site 1029825007860 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1029825007861 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1029825007862 peptide binding site [polypeptide binding]; other site 1029825007863 Predicted integral membrane protein [Function unknown]; Region: COG5455 1029825007864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029825007865 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1029825007866 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1029825007867 NAD binding site [chemical binding]; other site 1029825007868 homodimer interface [polypeptide binding]; other site 1029825007869 active site 1029825007870 substrate binding site [chemical binding]; other site 1029825007871 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1029825007872 active site 1029825007873 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1029825007874 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1029825007875 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1029825007876 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1029825007877 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1029825007878 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1029825007879 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1029825007880 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 1029825007881 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1029825007882 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1029825007883 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825007884 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825007885 yecA family protein; Region: ygfB_yecA; TIGR02292 1029825007886 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1029825007887 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1029825007888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1029825007889 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1029825007890 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1029825007891 Transposase; Region: HTH_Tnp_1; pfam01527 1029825007892 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825007893 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1029825007894 putative deacylase active site [active] 1029825007895 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 1029825007896 Predicted transcriptional regulator [Transcription]; Region: COG1959 1029825007897 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1029825007898 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1029825007899 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1029825007900 heme binding site [chemical binding]; other site 1029825007901 ferroxidase pore; other site 1029825007902 ferroxidase diiron center [ion binding]; other site 1029825007903 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1029825007904 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1029825007905 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 1029825007906 FeS/SAM binding site; other site 1029825007907 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1029825007908 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1029825007909 putative ligand binding site [chemical binding]; other site 1029825007910 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1029825007911 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825007912 TM-ABC transporter signature motif; other site 1029825007913 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825007914 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1029825007915 TM-ABC transporter signature motif; other site 1029825007916 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1029825007917 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1029825007918 Walker A/P-loop; other site 1029825007919 ATP binding site [chemical binding]; other site 1029825007920 Q-loop/lid; other site 1029825007921 ABC transporter signature motif; other site 1029825007922 Walker B; other site 1029825007923 D-loop; other site 1029825007924 H-loop/switch region; other site 1029825007925 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1029825007926 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1029825007927 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1029825007928 NADP binding site [chemical binding]; other site 1029825007929 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1029825007930 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1029825007931 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 1029825007932 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1029825007933 Uncharacterized conserved protein [Function unknown]; Region: COG3785 1029825007934 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1029825007935 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1029825007936 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1029825007937 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1029825007938 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1029825007939 catalytic residues [active] 1029825007940 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1029825007941 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 1029825007942 active site 1029825007943 metal binding site [ion binding]; metal-binding site 1029825007944 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1029825007945 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1029825007946 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 1029825007947 ATP binding site [chemical binding]; other site 1029825007948 putative Mg++ binding site [ion binding]; other site 1029825007949 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 1029825007950 nucleotide binding region [chemical binding]; other site 1029825007951 ATP-binding site [chemical binding]; other site 1029825007952 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1029825007953 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1029825007954 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1029825007955 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 1029825007956 generic binding surface II; other site 1029825007957 ssDNA binding site; other site 1029825007958 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 1029825007959 ATP binding site [chemical binding]; other site 1029825007960 putative Mg++ binding site [ion binding]; other site 1029825007961 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 1029825007962 nucleotide binding region [chemical binding]; other site 1029825007963 ATP-binding site [chemical binding]; other site 1029825007964 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1029825007965 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 1029825007966 glutaminase active site [active] 1029825007967 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 1029825007968 dimer interface [polypeptide binding]; other site 1029825007969 active site 1029825007970 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 1029825007971 dimer interface [polypeptide binding]; other site 1029825007972 active site 1029825007973 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 1029825007974 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1029825007975 Substrate binding site; other site 1029825007976 Mg++ binding site; other site 1029825007977 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 1029825007978 active site 1029825007979 substrate binding site [chemical binding]; other site 1029825007980 CoA binding site [chemical binding]; other site 1029825007981 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1029825007982 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1029825007983 Predicted integral membrane protein [Function unknown]; Region: COG0392 1029825007984 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1029825007985 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1029825007986 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1029825007987 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1029825007988 BA14K-like protein; Region: BA14K; pfam07886 1029825007989 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 1029825007990 PAS domain; Region: PAS_9; pfam13426 1029825007991 putative active site [active] 1029825007992 heme pocket [chemical binding]; other site 1029825007993 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 1029825007994 PAS fold; Region: PAS_3; pfam08447 1029825007995 putative active site [active] 1029825007996 heme pocket [chemical binding]; other site 1029825007997 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1029825007998 HWE histidine kinase; Region: HWE_HK; pfam07536 1029825007999 lipoate-protein ligase B; Provisional; Region: PRK14341 1029825008000 EamA-like transporter family; Region: EamA; pfam00892 1029825008001 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1029825008002 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1029825008003 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 1029825008004 Mg2+ binding site [ion binding]; other site 1029825008005 G-X-G motif; other site 1029825008006 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 1029825008007 anchoring element; other site 1029825008008 dimer interface [polypeptide binding]; other site 1029825008009 ATP binding site [chemical binding]; other site 1029825008010 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1029825008011 active site 1029825008012 metal binding site [ion binding]; metal-binding site 1029825008013 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1029825008014 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1029825008015 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1029825008016 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1029825008017 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1029825008018 metal-dependent hydrolase; Provisional; Region: PRK00685 1029825008019 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1029825008020 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1029825008021 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1029825008022 active site 1029825008023 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1029825008024 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1029825008025 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1029825008026 dihydroorotase; Validated; Region: PRK09059 1029825008027 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 1029825008028 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1029825008029 active site 1029825008030 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1029825008031 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1029825008032 DNA protecting protein DprA; Region: dprA; TIGR00732 1029825008033 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1029825008034 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 1029825008035 active site 1029825008036 interdomain interaction site; other site 1029825008037 putative metal-binding site [ion binding]; other site 1029825008038 nucleotide binding site [chemical binding]; other site 1029825008039 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 1029825008040 domain I; other site 1029825008041 DNA binding groove [nucleotide binding] 1029825008042 phosphate binding site [ion binding]; other site 1029825008043 domain II; other site 1029825008044 domain III; other site 1029825008045 nucleotide binding site [chemical binding]; other site 1029825008046 catalytic site [active] 1029825008047 domain IV; other site 1029825008048 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1029825008049 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1029825008050 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1029825008051 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1029825008052 ribonuclease R; Region: RNase_R; TIGR02063 1029825008053 RNB domain; Region: RNB; pfam00773 1029825008054 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 1029825008055 RNA binding site [nucleotide binding]; other site 1029825008056 hypothetical protein; Provisional; Region: PRK05978 1029825008057 NUDIX domain; Region: NUDIX; pfam00293 1029825008058 nudix motif; other site 1029825008059 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1029825008060 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 1029825008061 putative substrate translocation pore; other site 1029825008062 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1029825008063 response regulator PleD; Reviewed; Region: pleD; PRK09581 1029825008064 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 1029825008065 active site 1029825008066 phosphorylation site [posttranslational modification] 1029825008067 intermolecular recognition site; other site 1029825008068 dimerization interface [polypeptide binding]; other site 1029825008069 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 1029825008070 active site 1029825008071 phosphorylation site [posttranslational modification] 1029825008072 intermolecular recognition site; other site 1029825008073 dimerization interface [polypeptide binding]; other site 1029825008074 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1029825008075 metal binding site [ion binding]; metal-binding site 1029825008076 active site 1029825008077 I-site; other site 1029825008078 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1029825008079 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 1029825008080 active site 1029825008081 phosphorylation site [posttranslational modification] 1029825008082 intermolecular recognition site; other site 1029825008083 dimerization interface [polypeptide binding]; other site 1029825008084 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 1029825008085 DNA polymerase IV; Provisional; Region: PRK02794 1029825008086 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1029825008087 active site 1029825008088 DNA binding site [nucleotide binding] 1029825008089 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1029825008090 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1029825008091 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1029825008092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1029825008093 metal binding site [ion binding]; metal-binding site 1029825008094 active site 1029825008095 I-site; other site 1029825008096 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1029825008097 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1029825008098 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1029825008099 active site 1029825008100 catalytic site [active] 1029825008101 substrate binding site [chemical binding]; other site 1029825008102 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825008103 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1029825008104 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825008105 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1029825008106 active site 1029825008107 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1029825008108 Coenzyme A transferase; Region: CoA_trans; cl17247 1029825008109 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1029825008110 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1029825008111 Bacterial transcriptional regulator; Region: IclR; pfam01614 1029825008112 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1029825008113 Cupin domain; Region: Cupin_2; cl17218 1029825008114 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825008115 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1029825008116 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1029825008117 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1029825008118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825008119 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 1029825008120 dimerization interface [polypeptide binding]; other site 1029825008121 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1029825008122 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1029825008123 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1029825008124 active site 1029825008125 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1029825008126 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 1029825008127 heterodimer interface [polypeptide binding]; other site 1029825008128 active site 1029825008129 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 1029825008130 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1029825008131 tetramer interface [polypeptide binding]; other site 1029825008132 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1029825008133 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1029825008134 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825008135 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1029825008136 TM-ABC transporter signature motif; other site 1029825008137 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1029825008138 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1029825008139 TM-ABC transporter signature motif; other site 1029825008140 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1029825008141 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1029825008142 Walker A/P-loop; other site 1029825008143 ATP binding site [chemical binding]; other site 1029825008144 Q-loop/lid; other site 1029825008145 ABC transporter signature motif; other site 1029825008146 Walker B; other site 1029825008147 D-loop; other site 1029825008148 H-loop/switch region; other site 1029825008149 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1029825008150 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1029825008151 Walker A/P-loop; other site 1029825008152 ATP binding site [chemical binding]; other site 1029825008153 Q-loop/lid; other site 1029825008154 ABC transporter signature motif; other site 1029825008155 Walker B; other site 1029825008156 D-loop; other site 1029825008157 H-loop/switch region; other site 1029825008158 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1029825008159 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 1029825008160 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1029825008161 active site 1029825008162 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1029825008163 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1029825008164 active site 1029825008165 dimer interface [polypeptide binding]; other site 1029825008166 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1029825008167 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1029825008168 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1029825008169 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1029825008170 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1029825008171 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 1029825008172 dimer interface [polypeptide binding]; other site 1029825008173 conserved gate region; other site 1029825008174 ABC-ATPase subunit interface; other site 1029825008175 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1029825008176 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1029825008177 Walker A/P-loop; other site 1029825008178 ATP binding site [chemical binding]; other site 1029825008179 Q-loop/lid; other site 1029825008180 ABC transporter signature motif; other site 1029825008181 Walker B; other site 1029825008182 D-loop; other site 1029825008183 H-loop/switch region; other site 1029825008184 TOBE domain; Region: TOBE_2; pfam08402 1029825008185 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1029825008186 transmembrane helices; other site 1029825008187 TrkA-C domain; Region: TrkA_C; pfam02080 1029825008188 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 1029825008189 TrkA-C domain; Region: TrkA_C; pfam02080 1029825008190 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1029825008191 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1029825008192 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 1029825008193 nucleoside/Zn binding site; other site 1029825008194 dimer interface [polypeptide binding]; other site 1029825008195 catalytic motif [active] 1029825008196 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1029825008197 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1029825008198 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 1029825008199 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1029825008200 EamA-like transporter family; Region: EamA; pfam00892 1029825008201 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1029825008202 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1029825008203 homodimer interface [polypeptide binding]; other site 1029825008204 substrate-cofactor binding pocket; other site 1029825008205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825008206 catalytic residue [active] 1029825008207 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1029825008208 potential frameshift: common BLAST hit: gi|376271119|ref|YP_005114164.1| FAD-binding dehydrogenase 1029825008209 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1029825008210 FAD binding domain; Region: FAD_binding_2; pfam00890 1029825008211 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1029825008212 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 1029825008213 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1029825008214 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1029825008215 NAD binding site [chemical binding]; other site 1029825008216 catalytic residues [active] 1029825008217 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 1029825008218 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1029825008219 putative ligand binding residues [chemical binding]; other site 1029825008220 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1029825008221 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 1029825008222 ABC-ATPase subunit interface; other site 1029825008223 dimer interface [polypeptide binding]; other site 1029825008224 putative PBP binding regions; other site 1029825008225 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 1029825008226 ABC-ATPase subunit interface; other site 1029825008227 dimer interface [polypeptide binding]; other site 1029825008228 putative PBP binding regions; other site 1029825008229 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1029825008230 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1029825008231 Walker A/P-loop; other site 1029825008232 ATP binding site [chemical binding]; other site 1029825008233 Q-loop/lid; other site 1029825008234 ABC transporter signature motif; other site 1029825008235 Walker B; other site 1029825008236 D-loop; other site 1029825008237 H-loop/switch region; other site 1029825008238 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 1029825008239 5-oxoprolinase; Region: PLN02666 1029825008240 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1029825008241 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1029825008242 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1029825008243 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1029825008244 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 1029825008245 substrate binding pocket [chemical binding]; other site 1029825008246 membrane-bound complex binding site; other site 1029825008247 hinge residues; other site 1029825008248 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 1029825008249 dimer interface [polypeptide binding]; other site 1029825008250 conserved gate region; other site 1029825008251 putative PBP binding loops; other site 1029825008252 ABC-ATPase subunit interface; other site 1029825008253 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1029825008254 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825008255 Walker A/P-loop; other site 1029825008256 ATP binding site [chemical binding]; other site 1029825008257 Q-loop/lid; other site 1029825008258 ABC transporter signature motif; other site 1029825008259 Walker B; other site 1029825008260 D-loop; other site 1029825008261 H-loop/switch region; other site 1029825008262 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1029825008263 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1029825008264 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1029825008265 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 1029825008266 S-adenosylmethionine binding site [chemical binding]; other site 1029825008267 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 1029825008268 putative transporter; Provisional; Region: PRK10504 1029825008269 putative substrate translocation pore; other site 1029825008270 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 1029825008271 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1029825008272 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1029825008273 Walker A/P-loop; other site 1029825008274 ATP binding site [chemical binding]; other site 1029825008275 Q-loop/lid; other site 1029825008276 ABC transporter signature motif; other site 1029825008277 Walker B; other site 1029825008278 D-loop; other site 1029825008279 H-loop/switch region; other site 1029825008280 TOBE domain; Region: TOBE_2; pfam08402 1029825008281 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1029825008282 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 1029825008283 dimer interface [polypeptide binding]; other site 1029825008284 conserved gate region; other site 1029825008285 putative PBP binding loops; other site 1029825008286 ABC-ATPase subunit interface; other site 1029825008287 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 1029825008288 dimer interface [polypeptide binding]; other site 1029825008289 conserved gate region; other site 1029825008290 putative PBP binding loops; other site 1029825008291 ABC-ATPase subunit interface; other site 1029825008292 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1029825008293 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1029825008294 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 1029825008295 active site 1029825008296 homopentamer interface [polypeptide binding]; other site 1029825008297 dimer interface [polypeptide binding]; other site 1029825008298 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1029825008299 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 1029825008300 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1029825008301 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 1029825008302 dimer interface [polypeptide binding]; other site 1029825008303 conserved gate region; other site 1029825008304 putative PBP binding loops; other site 1029825008305 ABC-ATPase subunit interface; other site 1029825008306 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 1029825008307 dimer interface [polypeptide binding]; other site 1029825008308 conserved gate region; other site 1029825008309 putative PBP binding loops; other site 1029825008310 ABC-ATPase subunit interface; other site 1029825008311 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1029825008312 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1029825008313 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1029825008314 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1029825008315 Walker A/P-loop; other site 1029825008316 ATP binding site [chemical binding]; other site 1029825008317 Q-loop/lid; other site 1029825008318 ABC transporter signature motif; other site 1029825008319 Walker B; other site 1029825008320 D-loop; other site 1029825008321 H-loop/switch region; other site 1029825008322 FAD dependent oxidoreductase; Region: DAO; pfam01266 1029825008323 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1029825008324 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1029825008325 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1029825008326 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 1029825008327 E-class dimer interface [polypeptide binding]; other site 1029825008328 P-class dimer interface [polypeptide binding]; other site 1029825008329 active site 1029825008330 Cu2+ binding site [ion binding]; other site 1029825008331 Zn2+ binding site [ion binding]; other site 1029825008332 multicopper oxidase; Provisional; Region: PRK10965 1029825008333 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1029825008334 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1029825008335 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1029825008336 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 1029825008337 metabolite-proton symporter; Region: 2A0106; TIGR00883 1029825008338 putative substrate translocation pore; other site 1029825008339 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1029825008340 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1029825008341 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1029825008342 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1029825008343 dimer interface [polypeptide binding]; other site 1029825008344 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1029825008345 catalytic triad [active] 1029825008346 peroxidatic and resolving cysteines [active] 1029825008347 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1029825008348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825008349 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 1029825008350 dimerization interface [polypeptide binding]; other site 1029825008351 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 1029825008352 HTH DNA binding domain; Region: HTH_13; pfam11972 1029825008353 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825008354 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825008355 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1029825008356 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1029825008357 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1029825008358 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 1029825008359 putative active site [active] 1029825008360 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1029825008361 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 1029825008362 substrate binding site [chemical binding]; other site 1029825008363 ATP binding site [chemical binding]; other site 1029825008364 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1029825008365 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1029825008366 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1029825008367 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1029825008368 PYR/PP interface [polypeptide binding]; other site 1029825008369 dimer interface [polypeptide binding]; other site 1029825008370 TPP binding site [chemical binding]; other site 1029825008371 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1029825008372 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1029825008373 TPP-binding site [chemical binding]; other site 1029825008374 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1029825008375 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1029825008376 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1029825008377 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 1029825008378 active site 1029825008379 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1029825008380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825008381 Walker A/P-loop; other site 1029825008382 ATP binding site [chemical binding]; other site 1029825008383 Q-loop/lid; other site 1029825008384 ABC transporter signature motif; other site 1029825008385 Walker B; other site 1029825008386 D-loop; other site 1029825008387 H-loop/switch region; other site 1029825008388 TOBE domain; Region: TOBE_2; pfam08402 1029825008389 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1029825008390 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 1029825008391 dimer interface [polypeptide binding]; other site 1029825008392 conserved gate region; other site 1029825008393 putative PBP binding loops; other site 1029825008394 ABC-ATPase subunit interface; other site 1029825008395 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 1029825008396 dimer interface [polypeptide binding]; other site 1029825008397 conserved gate region; other site 1029825008398 putative PBP binding loops; other site 1029825008399 ABC-ATPase subunit interface; other site 1029825008400 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 1029825008401 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1029825008402 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1029825008403 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1029825008404 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1029825008405 Glutamate binding site [chemical binding]; other site 1029825008406 NAD binding site [chemical binding]; other site 1029825008407 catalytic residues [active] 1029825008408 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1029825008409 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 1029825008410 putative DNA binding site [nucleotide binding]; other site 1029825008411 putative Zn2+ binding site [ion binding]; other site 1029825008412 AsnC family; Region: AsnC_trans_reg; pfam01037 1029825008413 glycine dehydrogenase; Provisional; Region: PRK05367 1029825008414 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1029825008415 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029825008416 catalytic residue [active] 1029825008417 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1029825008418 tetramer interface [polypeptide binding]; other site 1029825008419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825008420 catalytic residue [active] 1029825008421 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1029825008422 lipoyl attachment site [posttranslational modification]; other site 1029825008423 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1029825008424 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1029825008425 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1029825008426 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1029825008427 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1029825008428 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029825008429 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1029825008430 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1029825008431 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 1029825008432 putative active site [active] 1029825008433 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1029825008434 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1029825008435 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1029825008436 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1029825008437 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1029825008438 putative active site [active] 1029825008439 metal binding site [ion binding]; metal-binding site 1029825008440 BA14K-like protein; Region: BA14K; pfam07886 1029825008441 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1029825008442 EamA-like transporter family; Region: EamA; pfam00892 1029825008443 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1029825008444 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1029825008445 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 1029825008446 dimer interface [polypeptide binding]; other site 1029825008447 conserved gate region; other site 1029825008448 putative PBP binding loops; other site 1029825008449 ABC-ATPase subunit interface; other site 1029825008450 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1029825008451 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1029825008452 Walker A/P-loop; other site 1029825008453 ATP binding site [chemical binding]; other site 1029825008454 Q-loop/lid; other site 1029825008455 ABC transporter signature motif; other site 1029825008456 Walker B; other site 1029825008457 D-loop; other site 1029825008458 H-loop/switch region; other site 1029825008459 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1029825008460 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1029825008461 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 1029825008462 dimer interface [polypeptide binding]; other site 1029825008463 active site 1029825008464 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1029825008465 substrate binding site [chemical binding]; other site 1029825008466 catalytic residue [active] 1029825008467 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1029825008468 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1029825008469 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 1029825008470 putative active site [active] 1029825008471 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1029825008472 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1029825008473 Walker A/P-loop; other site 1029825008474 ATP binding site [chemical binding]; other site 1029825008475 Q-loop/lid; other site 1029825008476 ABC transporter signature motif; other site 1029825008477 Walker B; other site 1029825008478 D-loop; other site 1029825008479 H-loop/switch region; other site 1029825008480 TOBE domain; Region: TOBE; pfam03459 1029825008481 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1029825008482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029825008483 NAD(P) binding site [chemical binding]; other site 1029825008484 active site 1029825008485 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1029825008486 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1029825008487 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 1029825008488 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1029825008489 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 1029825008490 dimer interface [polypeptide binding]; other site 1029825008491 conserved gate region; other site 1029825008492 putative PBP binding loops; other site 1029825008493 ABC-ATPase subunit interface; other site 1029825008494 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 1029825008495 homotrimer interaction site [polypeptide binding]; other site 1029825008496 putative active site [active] 1029825008497 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1029825008498 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1029825008499 MlrC C-terminus; Region: MlrC_C; pfam07171 1029825008500 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1029825008501 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1029825008502 Walker A/P-loop; other site 1029825008503 ATP binding site [chemical binding]; other site 1029825008504 Q-loop/lid; other site 1029825008505 ABC transporter signature motif; other site 1029825008506 Walker B; other site 1029825008507 D-loop; other site 1029825008508 H-loop/switch region; other site 1029825008509 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1029825008510 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 1029825008511 ABC-ATPase subunit interface; other site 1029825008512 dimer interface [polypeptide binding]; other site 1029825008513 putative PBP binding regions; other site 1029825008514 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 1029825008515 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1029825008516 putative ligand binding residues [chemical binding]; other site 1029825008517 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1029825008518 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825008519 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825008520 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1029825008521 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1029825008522 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1029825008523 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1029825008524 MarR family; Region: MarR_2; pfam12802 1029825008525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1029825008526 RNA methyltransferase, RsmE family; Region: TIGR00046 1029825008527 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 1029825008528 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1029825008529 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 1029825008530 generic binding surface II; other site 1029825008531 generic binding surface I; other site 1029825008532 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 1029825008533 dimerization interface [polypeptide binding]; other site 1029825008534 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 1029825008535 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1029825008536 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1029825008537 hypothetical protein; Reviewed; Region: PRK12275 1029825008538 four helix bundle protein; Region: TIGR02436 1029825008539 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1029825008540 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1029825008541 Hint domain; Region: Hint_2; pfam13403 1029825008542 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1029825008543 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 1029825008544 putative DNA binding site [nucleotide binding]; other site 1029825008545 putative Zn2+ binding site [ion binding]; other site 1029825008546 AsnC family; Region: AsnC_trans_reg; pfam01037 1029825008547 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1029825008548 Predicted membrane protein [Function unknown]; Region: COG4541 1029825008549 drug efflux system protein MdtG; Provisional; Region: PRK09874 1029825008550 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 1029825008551 putative substrate translocation pore; other site 1029825008552 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1029825008553 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1029825008554 putative NAD(P) binding site [chemical binding]; other site 1029825008555 active site 1029825008556 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1029825008557 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1029825008558 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1029825008559 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1029825008560 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 1029825008561 putative active site [active] 1029825008562 phosphogluconate dehydratase; Validated; Region: PRK09054 1029825008563 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1029825008564 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1029825008565 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1029825008566 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1029825008567 homodimer interface [polypeptide binding]; other site 1029825008568 NADP binding site [chemical binding]; other site 1029825008569 substrate binding site [chemical binding]; other site 1029825008570 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1029825008571 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1029825008572 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1029825008573 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825008574 Walker A/P-loop; other site 1029825008575 ATP binding site [chemical binding]; other site 1029825008576 Q-loop/lid; other site 1029825008577 ABC transporter signature motif; other site 1029825008578 Walker B; other site 1029825008579 D-loop; other site 1029825008580 H-loop/switch region; other site 1029825008581 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1029825008582 potential frameshift: common BLAST hit: gi|376276562|ref|YP_005152623.1| peptide/nickel transport system ATP-binding protein 1029825008583 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825008584 H-loop/switch region; other site 1029825008585 potential frameshift: common BLAST hit: gi|376276562|ref|YP_005152623.1| peptide/nickel transport system ATP-binding protein 1029825008586 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825008587 ABC transporter signature motif; other site 1029825008588 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825008589 Walker A/P-loop; other site 1029825008590 ATP binding site [chemical binding]; other site 1029825008591 Q-loop/lid; other site 1029825008592 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1029825008593 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 1029825008594 dimer interface [polypeptide binding]; other site 1029825008595 conserved gate region; other site 1029825008596 putative PBP binding loops; other site 1029825008597 ABC-ATPase subunit interface; other site 1029825008598 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1029825008599 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 1029825008600 dimer interface [polypeptide binding]; other site 1029825008601 conserved gate region; other site 1029825008602 putative PBP binding loops; other site 1029825008603 ABC-ATPase subunit interface; other site 1029825008604 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1029825008605 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_13; cd08517 1029825008606 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 1029825008607 active site clefts [active] 1029825008608 zinc binding site [ion binding]; other site 1029825008609 dimer interface [polypeptide binding]; other site 1029825008610 tellurite resistance protein terB; Region: terB; cd07176 1029825008611 putative metal binding site [ion binding]; other site 1029825008612 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1029825008613 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029825008614 active site 1029825008615 nucleotide binding site [chemical binding]; other site 1029825008616 HIGH motif; other site 1029825008617 KMSKS motif; other site 1029825008618 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1029825008619 Predicted transcriptional regulator [Transcription]; Region: COG2932 1029825008620 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1029825008621 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 1029825008622 Catalytic site [active] 1029825008623 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1029825008624 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 1029825008625 substrate binding site [chemical binding]; other site 1029825008626 oxyanion hole (OAH) forming residues; other site 1029825008627 trimer interface [polypeptide binding]; other site 1029825008628 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1029825008629 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1029825008630 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1029825008631 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 1029825008632 dimer interface [polypeptide binding]; other site 1029825008633 active site 1029825008634 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1029825008635 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1029825008636 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1029825008637 FAD binding site [chemical binding]; other site 1029825008638 substrate binding site [chemical binding]; other site 1029825008639 catalytic residues [active] 1029825008640 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1029825008641 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1029825008642 putative dimerization interface [polypeptide binding]; other site 1029825008643 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1029825008644 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1029825008645 active site 1029825008646 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 1029825008647 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825008648 Walker A/P-loop; other site 1029825008649 ATP binding site [chemical binding]; other site 1029825008650 Q-loop/lid; other site 1029825008651 ABC transporter signature motif; other site 1029825008652 Walker B; other site 1029825008653 D-loop; other site 1029825008654 H-loop/switch region; other site 1029825008655 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 1029825008656 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825008657 Walker A/P-loop; other site 1029825008658 ATP binding site [chemical binding]; other site 1029825008659 Q-loop/lid; other site 1029825008660 ABC transporter signature motif; other site 1029825008661 Walker B; other site 1029825008662 D-loop; other site 1029825008663 H-loop/switch region; other site 1029825008664 potential frameshift: common BLAST hit: gi|376270991|ref|YP_005114036.1| binding-protein-dependent transport system inner membrane component 1029825008665 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 1029825008666 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 1029825008667 dimer interface [polypeptide binding]; other site 1029825008668 conserved gate region; other site 1029825008669 ABC-ATPase subunit interface; other site 1029825008670 nickel transporter permease NikB; Provisional; Region: PRK10352 1029825008671 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 1029825008672 dimer interface [polypeptide binding]; other site 1029825008673 conserved gate region; other site 1029825008674 putative PBP binding loops; other site 1029825008675 ABC-ATPase subunit interface; other site 1029825008676 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1029825008677 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1029825008678 substrate binding site [chemical binding]; other site 1029825008679 nickel responsive regulator; Provisional; Region: PRK02967 1029825008680 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1029825008681 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1029825008682 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1029825008683 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1029825008684 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 1029825008685 dimer interface [polypeptide binding]; other site 1029825008686 conserved gate region; other site 1029825008687 putative PBP binding loops; other site 1029825008688 ABC-ATPase subunit interface; other site 1029825008689 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 1029825008690 putative PBP binding loops; other site 1029825008691 ABC-ATPase subunit interface; other site 1029825008692 ABC transporter; Region: ABC_tran; pfam00005 1029825008693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825008694 Q-loop/lid; other site 1029825008695 ABC transporter signature motif; other site 1029825008696 Walker B; other site 1029825008697 D-loop; other site 1029825008698 H-loop/switch region; other site 1029825008699 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1029825008700 hypothetical protein; Provisional; Region: PRK11622 1029825008701 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1029825008702 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1029825008703 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1029825008704 Glucuronate isomerase; Region: UxaC; cl00829 1029825008705 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1029825008706 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1029825008707 glucuronate isomerase; Reviewed; Region: PRK02925 1029825008708 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1029825008709 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825008710 DNA-binding site [nucleotide binding]; DNA binding site 1029825008711 FCD domain; Region: FCD; pfam07729 1029825008712 mannonate dehydratase; Region: uxuA; TIGR00695 1029825008713 mannonate dehydratase; Provisional; Region: PRK03906 1029825008714 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1029825008715 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1029825008716 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825008717 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825008718 camphor resistance protein CrcB; Provisional; Region: PRK14233 1029825008719 camphor resistance protein CrcB; Provisional; Region: PRK14225 1029825008720 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 1029825008721 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1029825008722 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1029825008723 DNA binding residues [nucleotide binding] 1029825008724 putative dimer interface [polypeptide binding]; other site 1029825008725 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1029825008726 Sel1-like repeats; Region: SEL1; smart00671 1029825008727 Sel1-like repeats; Region: SEL1; smart00671 1029825008728 Sel1-like repeats; Region: SEL1; smart00671 1029825008729 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1029825008730 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1029825008731 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 1029825008732 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1029825008733 putative active site [active] 1029825008734 putative metal binding site [ion binding]; other site 1029825008735 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1029825008736 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 1029825008737 ATP binding site [chemical binding]; other site 1029825008738 putative Mg++ binding site [ion binding]; other site 1029825008739 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 1029825008740 nucleotide binding region [chemical binding]; other site 1029825008741 ATP-binding site [chemical binding]; other site 1029825008742 DEAD/H associated; Region: DEAD_assoc; pfam08494 1029825008743 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1029825008744 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 1029825008745 FMN binding site [chemical binding]; other site 1029825008746 substrate binding site [chemical binding]; other site 1029825008747 putative catalytic residue [active] 1029825008748 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 1029825008749 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 1029825008750 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1029825008751 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1029825008752 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1029825008753 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1029825008754 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1029825008755 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1029825008756 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1029825008757 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1029825008758 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 1029825008759 ATP binding site [chemical binding]; other site 1029825008760 putative Mg++ binding site [ion binding]; other site 1029825008761 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1029825008762 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1029825008763 Protein of unknown function DUF45; Region: DUF45; pfam01863 1029825008764 Protein of unknown function DUF91; Region: DUF91; cl00709 1029825008765 Uncharacterized conserved protein [Function unknown]; Region: COG3586 1029825008766 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1029825008767 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1029825008768 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 1029825008769 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 1029825008770 inhibitor-cofactor binding pocket; inhibition site 1029825008771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825008772 catalytic residue [active] 1029825008773 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1029825008774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029825008775 NAD(P) binding site [chemical binding]; other site 1029825008776 active site 1029825008777 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1029825008778 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1029825008779 FAD binding domain; Region: FAD_binding_4; pfam01565 1029825008780 hypothetical protein; Validated; Region: PRK08238 1029825008781 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1029825008782 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 1029825008783 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1029825008784 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1029825008785 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1029825008786 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1029825008787 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1029825008788 ligand binding site [chemical binding]; other site 1029825008789 dimerization interface [polypeptide binding]; other site 1029825008790 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 1029825008791 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825008792 TM-ABC transporter signature motif; other site 1029825008793 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1029825008794 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1029825008795 Walker A/P-loop; other site 1029825008796 ATP binding site [chemical binding]; other site 1029825008797 Q-loop/lid; other site 1029825008798 ABC transporter signature motif; other site 1029825008799 Walker B; other site 1029825008800 D-loop; other site 1029825008801 H-loop/switch region; other site 1029825008802 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1029825008803 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 1029825008804 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1029825008805 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1029825008806 putative N- and C-terminal domain interface [polypeptide binding]; other site 1029825008807 putative active site [active] 1029825008808 MgATP binding site [chemical binding]; other site 1029825008809 catalytic site [active] 1029825008810 metal binding site [ion binding]; metal-binding site 1029825008811 putative xylulose binding site [chemical binding]; other site 1029825008812 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 1029825008813 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1029825008814 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1029825008815 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1029825008816 PCI domain; Region: PCI; cl02111 1029825008817 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1029825008818 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1029825008819 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1029825008820 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1029825008821 triosephosphate isomerase; Provisional; Region: PRK14565 1029825008822 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 1029825008823 substrate binding site [chemical binding]; other site 1029825008824 dimer interface [polypeptide binding]; other site 1029825008825 catalytic triad [active] 1029825008826 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1029825008827 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1029825008828 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1029825008829 intersubunit interface [polypeptide binding]; other site 1029825008830 active site 1029825008831 zinc binding site [ion binding]; other site 1029825008832 Na+ binding site [ion binding]; other site 1029825008833 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 1029825008834 AMP binding site [chemical binding]; other site 1029825008835 metal binding site [ion binding]; metal-binding site 1029825008836 active site 1029825008837 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1029825008838 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1029825008839 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1029825008840 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1029825008841 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1029825008842 G1 box; other site 1029825008843 putative GEF interaction site [polypeptide binding]; other site 1029825008844 GTP/Mg2+ binding site [chemical binding]; other site 1029825008845 Switch I region; other site 1029825008846 G2 box; other site 1029825008847 G3 box; other site 1029825008848 Switch II region; other site 1029825008849 G4 box; other site 1029825008850 G5 box; other site 1029825008851 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 1029825008852 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 1029825008853 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1029825008854 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1029825008855 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1029825008856 Divalent cation transporter; Region: MgtE; pfam01769 1029825008857 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1029825008858 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1029825008859 active site 1029825008860 Zn binding site [ion binding]; other site 1029825008861 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_5; cd07238 1029825008862 dimer interface [polypeptide binding]; other site 1029825008863 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029825008864 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 1029825008865 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1029825008866 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1029825008867 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 1029825008868 substrate binding site [chemical binding]; other site 1029825008869 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1029825008870 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1029825008871 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1029825008872 MarR family; Region: MarR; pfam01047 1029825008873 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1029825008874 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1029825008875 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 1029825008876 putative substrate translocation pore; other site 1029825008877 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1029825008878 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1029825008879 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1029825008880 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 1029825008881 DNA binding site [nucleotide binding] 1029825008882 active site 1029825008883 tartrate dehydrogenase; Region: TTC; TIGR02089 1029825008884 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1029825008885 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1029825008886 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1029825008887 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1029825008888 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 1029825008889 catalytic residues [active] 1029825008890 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 1029825008891 putative deacylase active site [active] 1029825008892 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1029825008893 apolar tunnel; other site 1029825008894 heme binding site [chemical binding]; other site 1029825008895 dimerization interface [polypeptide binding]; other site 1029825008896 ornithine cyclodeaminase; Validated; Region: PRK07589 1029825008897 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1029825008898 Arginase family; Region: Arginase; cd09989 1029825008899 agmatinase; Region: agmatinase; TIGR01230 1029825008900 active site 1029825008901 Mn binding site [ion binding]; other site 1029825008902 oligomer interface [polypeptide binding]; other site 1029825008903 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1029825008904 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1029825008905 AsnC family; Region: AsnC_trans_reg; pfam01037 1029825008906 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1029825008907 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1029825008908 FMN binding site [chemical binding]; other site 1029825008909 active site 1029825008910 substrate binding site [chemical binding]; other site 1029825008911 catalytic residue [active] 1029825008912 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 1029825008913 dimerization interface [polypeptide binding]; other site 1029825008914 putative DNA binding site [nucleotide binding]; other site 1029825008915 putative Zn2+ binding site [ion binding]; other site 1029825008916 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1029825008917 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1029825008918 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1029825008919 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 1029825008920 RNA binding site [nucleotide binding]; other site 1029825008921 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1029825008922 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1029825008923 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1029825008924 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 1029825008925 putative Zn2+ binding site [ion binding]; other site 1029825008926 putative DNA binding site [nucleotide binding]; other site 1029825008927 dimerization interface [polypeptide binding]; other site 1029825008928 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 1029825008929 dimerization interface [polypeptide binding]; other site 1029825008930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1029825008931 aldehyde dehydrogenase family 7 member; Region: PLN02315 1029825008932 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1029825008933 tetrameric interface [polypeptide binding]; other site 1029825008934 NAD binding site [chemical binding]; other site 1029825008935 catalytic residues [active] 1029825008936 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1029825008937 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1029825008938 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1029825008939 putative active site [active] 1029825008940 putative substrate binding site [chemical binding]; other site 1029825008941 putative cosubstrate binding site; other site 1029825008942 catalytic site [active] 1029825008943 hypothetical protein; Provisional; Region: PRK02947 1029825008944 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 1029825008945 putative active site [active] 1029825008946 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1029825008947 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 1029825008948 active site 1029825008949 dimer interface [polypeptide binding]; other site 1029825008950 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1029825008951 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 1029825008952 dimer interface [polypeptide binding]; other site 1029825008953 active site 1029825008954 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 1029825008955 dimer interface [polypeptide binding]; other site 1029825008956 active site 1029825008957 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1029825008958 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825008959 DNA-binding site [nucleotide binding]; DNA binding site 1029825008960 UTRA domain; Region: UTRA; pfam07702 1029825008961 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1029825008962 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1029825008963 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825008964 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825008965 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1029825008966 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1029825008967 HlyD family secretion protein; Region: HlyD_3; pfam13437 1029825008968 putative membrane fusion protein; Region: TIGR02828 1029825008969 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1029825008970 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1029825008971 putative molybdopterin cofactor binding site [chemical binding]; other site 1029825008972 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1029825008973 putative molybdopterin cofactor binding site; other site 1029825008974 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1029825008975 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 1029825008976 phosphate binding site [ion binding]; other site 1029825008977 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1029825008978 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1029825008979 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 1029825008980 putative DNA binding site [nucleotide binding]; other site 1029825008981 putative Zn2+ binding site [ion binding]; other site 1029825008982 AsnC family; Region: AsnC_trans_reg; pfam01037 1029825008983 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1029825008984 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1029825008985 active site 1029825008986 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1029825008987 dimer interface [polypeptide binding]; other site 1029825008988 substrate binding site [chemical binding]; other site 1029825008989 catalytic residues [active] 1029825008990 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1029825008991 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029825008992 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1029825008993 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1029825008994 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 1029825008995 non-specific DNA binding site [nucleotide binding]; other site 1029825008996 salt bridge; other site 1029825008997 sequence-specific DNA binding site [nucleotide binding]; other site 1029825008998 Cupin domain; Region: Cupin_2; pfam07883 1029825008999 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 1029825009000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825009001 catalytic residue [active] 1029825009002 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1029825009003 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825009004 DNA-binding site [nucleotide binding]; DNA binding site 1029825009005 UTRA domain; Region: UTRA; pfam07702 1029825009006 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1029825009007 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 1029825009008 active site 1029825009009 imidazolonepropionase; Validated; Region: PRK09356 1029825009010 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1029825009011 active site 1029825009012 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1029825009013 active sites [active] 1029825009014 potential frameshift: common BLAST hit: gi|340792702|ref|YP_004758166.1| histidine ammonia-lyase 1029825009015 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1029825009016 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1029825009017 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 1029825009018 urocanate hydratase; Provisional; Region: PRK05414 1029825009019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 1029825009020 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1029825009021 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 1029825009022 homodimer interface [polypeptide binding]; other site 1029825009023 substrate-cofactor binding pocket; other site 1029825009024 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825009025 catalytic residue [active] 1029825009026 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 1029825009027 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 1029825009028 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825009029 TM-ABC transporter signature motif; other site 1029825009030 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1029825009031 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1029825009032 Walker A/P-loop; other site 1029825009033 ATP binding site [chemical binding]; other site 1029825009034 Q-loop/lid; other site 1029825009035 ABC transporter signature motif; other site 1029825009036 Walker B; other site 1029825009037 D-loop; other site 1029825009038 H-loop/switch region; other site 1029825009039 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1029825009040 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1029825009041 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 1029825009042 putative ligand binding site [chemical binding]; other site 1029825009043 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1029825009044 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1029825009045 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1029825009046 active site 1029825009047 intersubunit interface [polypeptide binding]; other site 1029825009048 catalytic residue [active] 1029825009049 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1029825009050 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1029825009051 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 1029825009052 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1029825009053 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1029825009054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1029825009055 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1029825009056 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1029825009057 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1029825009058 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825009059 DNA-binding site [nucleotide binding]; DNA binding site 1029825009060 FCD domain; Region: FCD; pfam07729 1029825009061 thiamine pyrophosphate protein; Validated; Region: PRK08199 1029825009062 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1029825009063 PYR/PP interface [polypeptide binding]; other site 1029825009064 dimer interface [polypeptide binding]; other site 1029825009065 TPP binding site [chemical binding]; other site 1029825009066 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1029825009067 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1029825009068 TPP-binding site [chemical binding]; other site 1029825009069 D-aminopeptidase; Reviewed; Region: PRK13128 1029825009070 Beta-lactamase; Region: Beta-lactamase; pfam00144 1029825009071 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 1029825009072 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 1029825009073 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1029825009074 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 1029825009075 substrate binding pocket [chemical binding]; other site 1029825009076 membrane-bound complex binding site; other site 1029825009077 hinge residues; other site 1029825009078 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1029825009079 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 1029825009080 inhibitor-cofactor binding pocket; inhibition site 1029825009081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825009082 catalytic residue [active] 1029825009083 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1029825009084 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; cl17270 1029825009085 active site 1029825009086 substrate binding site [chemical binding]; other site 1029825009087 ATP binding site [chemical binding]; other site 1029825009088 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1029825009089 Peptidase family M23; Region: Peptidase_M23; pfam01551 1029825009090 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1029825009091 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1029825009092 AsnC family; Region: AsnC_trans_reg; pfam01037 1029825009093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1029825009094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1029825009095 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1029825009096 dimerization interface [polypeptide binding]; other site 1029825009097 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1029825009098 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1029825009099 putative ligand binding site [chemical binding]; other site 1029825009100 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1029825009101 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1029825009102 Walker A/P-loop; other site 1029825009103 ATP binding site [chemical binding]; other site 1029825009104 Q-loop/lid; other site 1029825009105 ABC transporter signature motif; other site 1029825009106 Walker B; other site 1029825009107 D-loop; other site 1029825009108 H-loop/switch region; other site 1029825009109 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1029825009110 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1029825009111 Walker A/P-loop; other site 1029825009112 ATP binding site [chemical binding]; other site 1029825009113 Q-loop/lid; other site 1029825009114 ABC transporter signature motif; other site 1029825009115 Walker B; other site 1029825009116 D-loop; other site 1029825009117 H-loop/switch region; other site 1029825009118 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1029825009119 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825009120 TM-ABC transporter signature motif; other site 1029825009121 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1029825009122 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1029825009123 TM-ABC transporter signature motif; other site 1029825009124 choline dehydrogenase; Validated; Region: PRK02106 1029825009125 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1029825009126 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1029825009127 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1029825009128 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1029825009129 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1029825009130 Walker A/P-loop; other site 1029825009131 ATP binding site [chemical binding]; other site 1029825009132 Q-loop/lid; other site 1029825009133 ABC transporter signature motif; other site 1029825009134 Walker B; other site 1029825009135 D-loop; other site 1029825009136 H-loop/switch region; other site 1029825009137 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 1029825009138 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 1029825009139 dimer interface [polypeptide binding]; other site 1029825009140 conserved gate region; other site 1029825009141 ABC-ATPase subunit interface; other site 1029825009142 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_19; cd07262 1029825009143 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029825009144 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1029825009145 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 1029825009146 TPR motif; other site 1029825009147 binding surface 1029825009148 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 1029825009149 binding surface 1029825009150 TPR motif; other site 1029825009151 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 1029825009152 binding surface 1029825009153 TPR motif; other site 1029825009154 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1029825009155 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 1029825009156 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1029825009157 putative active site [active] 1029825009158 putative catalytic site [active] 1029825009159 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1029825009160 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 1029825009161 motif II; other site 1029825009162 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1029825009163 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1029825009164 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1029825009165 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1029825009166 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1029825009167 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1029825009168 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1029825009169 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1029825009170 ligand binding site [chemical binding]; other site 1029825009171 homodimer interface [polypeptide binding]; other site 1029825009172 NAD(P) binding site [chemical binding]; other site 1029825009173 trimer interface B [polypeptide binding]; other site 1029825009174 trimer interface A [polypeptide binding]; other site 1029825009175 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 1029825009176 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1029825009177 Beta-lactamase; Region: Beta-lactamase; pfam00144 1029825009178 PAS fold; Region: PAS_7; pfam12860 1029825009179 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1029825009180 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1029825009181 metal binding site [ion binding]; metal-binding site 1029825009182 active site 1029825009183 I-site; other site 1029825009184 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1029825009185 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1029825009186 classical (c) SDRs; Region: SDR_c; cd05233 1029825009187 NAD(P) binding site [chemical binding]; other site 1029825009188 active site 1029825009189 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1029825009190 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1029825009191 catalytic triad [active] 1029825009192 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1029825009193 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1029825009194 putative ligand binding site [chemical binding]; other site 1029825009195 NAD binding site [chemical binding]; other site 1029825009196 catalytic site [active] 1029825009197 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1029825009198 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1029825009199 DNA binding site [nucleotide binding] 1029825009200 domain linker motif; other site 1029825009201 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1029825009202 putative dimerization interface [polypeptide binding]; other site 1029825009203 putative ligand binding site [chemical binding]; other site 1029825009204 transcriptional regulator SlyA; Provisional; Region: PRK03573 1029825009205 MarR family; Region: MarR_2; cl17246 1029825009206 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1029825009207 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1029825009208 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1029825009209 P-loop, Walker A motif; other site 1029825009210 Base recognition motif; other site 1029825009211 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1029825009212 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1029825009213 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1029825009214 structural tetrad; other site 1029825009215 Predicted esterase [General function prediction only]; Region: COG0400 1029825009216 putative hydrolase; Provisional; Region: PRK11460 1029825009217 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1029825009218 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 1029825009219 Moco binding site; other site 1029825009220 metal coordination site [ion binding]; other site 1029825009221 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1029825009222 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 1029825009223 homotrimer interaction site [polypeptide binding]; other site 1029825009224 putative active site [active] 1029825009225 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825009226 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 1029825009227 TM-ABC transporter signature motif; other site 1029825009228 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 1029825009229 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825009230 TM-ABC transporter signature motif; other site 1029825009231 potential frameshift: common BLAST hit: gi|376278940|ref|YP_005108973.1| ribose ABC transporter, ATP-binding protein 1029825009232 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1029825009233 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1029825009234 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1029825009235 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1029825009236 Walker A/P-loop; other site 1029825009237 ATP binding site [chemical binding]; other site 1029825009238 Q-loop/lid; other site 1029825009239 ABC transporter signature motif; other site 1029825009240 Walker B; other site 1029825009241 D-loop; other site 1029825009242 H-loop/switch region; other site 1029825009243 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 1029825009244 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1029825009245 putative ligand binding site [chemical binding]; other site 1029825009246 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1029825009247 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1029825009248 Bacterial transcriptional regulator; Region: IclR; pfam01614 1029825009249 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1029825009250 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 1029825009251 N-terminal plug; other site 1029825009252 ligand-binding site [chemical binding]; other site 1029825009253 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_2; cd07253 1029825009254 dimer interface [polypeptide binding]; other site 1029825009255 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029825009256 metal binding site [ion binding]; metal-binding site 1029825009257 glutathionine S-transferase; Provisional; Region: PRK10542 1029825009258 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 1029825009259 C-terminal domain interface [polypeptide binding]; other site 1029825009260 GSH binding site (G-site) [chemical binding]; other site 1029825009261 dimer interface [polypeptide binding]; other site 1029825009262 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1029825009263 dimer interface [polypeptide binding]; other site 1029825009264 N-terminal domain interface [polypeptide binding]; other site 1029825009265 substrate binding pocket (H-site) [chemical binding]; other site 1029825009266 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 1029825009267 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1029825009268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1029825009269 metal binding site [ion binding]; metal-binding site 1029825009270 active site 1029825009271 I-site; other site 1029825009272 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1029825009273 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1029825009274 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1029825009275 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 1029825009276 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1029825009277 active site 1029825009278 catalytic site [active] 1029825009279 substrate binding site [chemical binding]; other site 1029825009280 potential frameshift: common BLAST hit: gi|225686762|ref|YP_002734734.1| amidase 1029825009281 Amidase; Region: Amidase; cl11426 1029825009282 Amidase; Region: Amidase; cl11426 1029825009283 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1029825009284 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825009285 Walker A/P-loop; other site 1029825009286 ATP binding site [chemical binding]; other site 1029825009287 Q-loop/lid; other site 1029825009288 ABC transporter signature motif; other site 1029825009289 Walker B; other site 1029825009290 D-loop; other site 1029825009291 H-loop/switch region; other site 1029825009292 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1029825009293 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1029825009294 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825009295 Walker A/P-loop; other site 1029825009296 ATP binding site [chemical binding]; other site 1029825009297 Q-loop/lid; other site 1029825009298 ABC transporter signature motif; other site 1029825009299 Walker B; other site 1029825009300 D-loop; other site 1029825009301 H-loop/switch region; other site 1029825009302 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1029825009303 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1029825009304 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 1029825009305 dimer interface [polypeptide binding]; other site 1029825009306 conserved gate region; other site 1029825009307 putative PBP binding loops; other site 1029825009308 ABC-ATPase subunit interface; other site 1029825009309 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1029825009310 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 1029825009311 dimer interface [polypeptide binding]; other site 1029825009312 conserved gate region; other site 1029825009313 putative PBP binding loops; other site 1029825009314 ABC-ATPase subunit interface; other site 1029825009315 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1029825009316 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_6; cd08494 1029825009317 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1029825009318 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1029825009319 putative NAD(P) binding site [chemical binding]; other site 1029825009320 active site 1029825009321 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1029825009322 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1029825009323 NAD(P) binding site [chemical binding]; other site 1029825009324 catalytic residues [active] 1029825009325 catalytic residues [active] 1029825009326 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1029825009327 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825009328 DNA-binding site [nucleotide binding]; DNA binding site 1029825009329 FCD domain; Region: FCD; pfam07729 1029825009330 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 1029825009331 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1029825009332 putative substrate translocation pore; other site 1029825009333 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 1029825009334 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1029825009335 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 1029825009336 homotrimer interaction site [polypeptide binding]; other site 1029825009337 putative active site [active] 1029825009338 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1029825009339 ribonuclease P; Reviewed; Region: rnpA; PRK01313 1029825009340 membrane protein insertase; Provisional; Region: PRK01318 1029825009341 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1029825009342 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1029825009343 G1 box; other site 1029825009344 GTP/Mg2+ binding site [chemical binding]; other site 1029825009345 Switch I region; other site 1029825009346 G2 box; other site 1029825009347 G3 box; other site 1029825009348 Switch II region; other site 1029825009349 G4 box; other site 1029825009350 G5 box; other site 1029825009351 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 1029825009352 homohexameric interface [polypeptide binding]; other site 1029825009353 feedback inhibition sensing region; other site 1029825009354 nucleotide binding site [chemical binding]; other site 1029825009355 N-acetyl-L-glutamate binding site [chemical binding]; other site 1029825009356 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1029825009357 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 1029825009358 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1029825009359 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1029825009360 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 1029825009361 trimer interface [polypeptide binding]; other site 1029825009362 active site 1029825009363 substrate binding site [chemical binding]; other site 1029825009364 CoA binding site [chemical binding]; other site 1029825009365 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1029825009366 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1029825009367 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1029825009368 metal binding site [ion binding]; metal-binding site 1029825009369 dimer interface [polypeptide binding]; other site 1029825009370 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1029825009371 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1029825009372 dimerization interface 3.5A [polypeptide binding]; other site 1029825009373 active site 1029825009374 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1029825009375 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1029825009376 putative active site [active] 1029825009377 substrate binding site [chemical binding]; other site 1029825009378 putative cosubstrate binding site; other site 1029825009379 catalytic site [active] 1029825009380 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1029825009381 substrate binding site [chemical binding]; other site 1029825009382 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 1029825009383 active site 1029825009384 catalytic residues [active] 1029825009385 metal binding site [ion binding]; metal-binding site 1029825009386 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1029825009387 RmuC family; Region: RmuC; pfam02646 1029825009388 Rdx family; Region: Rdx; cl01407 1029825009389 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1029825009390 GIY-YIG motif/motif A; other site 1029825009391 putative active site [active] 1029825009392 putative metal binding site [ion binding]; other site 1029825009393 GTP-binding protein LepA; Provisional; Region: PRK05433 1029825009394 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1029825009395 G1 box; other site 1029825009396 putative GEF interaction site [polypeptide binding]; other site 1029825009397 GTP/Mg2+ binding site [chemical binding]; other site 1029825009398 Switch I region; other site 1029825009399 G2 box; other site 1029825009400 G3 box; other site 1029825009401 Switch II region; other site 1029825009402 G4 box; other site 1029825009403 G5 box; other site 1029825009404 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 1029825009405 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 1029825009406 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1029825009407 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1029825009408 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1029825009409 putative NAD(P) binding site [chemical binding]; other site 1029825009410 active site 1029825009411 Undecaprenyl pyrophosphate phosphatase [Lipid transport and metabolism]; Region: BacA; COG1968 1029825009412 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1029825009413 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1029825009414 C-terminal domain interface [polypeptide binding]; other site 1029825009415 GSH binding site (G-site) [chemical binding]; other site 1029825009416 dimer interface [polypeptide binding]; other site 1029825009417 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1029825009418 N-terminal domain interface [polypeptide binding]; other site 1029825009419 dimer interface [polypeptide binding]; other site 1029825009420 substrate binding pocket (H-site) [chemical binding]; other site 1029825009421 epoxyqueuosine reductase; Region: TIGR00276 1029825009422 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1029825009423 HEAT repeat; Region: HEAT; pfam02985 1029825009424 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1029825009425 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1029825009426 putative NAD(P) binding site [chemical binding]; other site 1029825009427 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1029825009428 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1029825009429 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 1029825009430 active site 1029825009431 dimer interfaces [polypeptide binding]; other site 1029825009432 catalytic residues [active] 1029825009433 Glucokinase [Carbohydrate transport and metabolism]; Region: Glk; COG0837 1029825009434 glucokinase, proteobacterial type; Region: glk; TIGR00749 1029825009435 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1029825009436 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1029825009437 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1029825009438 Walker A/P-loop; other site 1029825009439 ATP binding site [chemical binding]; other site 1029825009440 Q-loop/lid; other site 1029825009441 ABC transporter signature motif; other site 1029825009442 Walker B; other site 1029825009443 D-loop; other site 1029825009444 H-loop/switch region; other site 1029825009445 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1029825009446 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1029825009447 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1029825009448 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 1029825009449 catalytic core [active] 1029825009450 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1029825009451 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1029825009452 active site 1029825009453 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1029825009454 putative FMN binding site [chemical binding]; other site 1029825009455 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 1029825009456 Ligand Binding Site [chemical binding]; other site 1029825009457 Predicted membrane protein [Function unknown]; Region: COG3714 1029825009458 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1029825009459 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1029825009460 NAD(P) binding site [chemical binding]; other site 1029825009461 catalytic residues [active] 1029825009462 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1029825009463 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1029825009464 putative catalytic site [active] 1029825009465 putative metal binding site [ion binding]; other site 1029825009466 putative phosphate binding site [ion binding]; other site 1029825009467 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1029825009468 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1029825009469 putative active site [active] 1029825009470 catalytic site [active] 1029825009471 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1029825009472 putative active site [active] 1029825009473 catalytic site [active] 1029825009474 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1029825009475 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1029825009476 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1029825009477 G1 box; other site 1029825009478 putative GEF interaction site [polypeptide binding]; other site 1029825009479 GTP/Mg2+ binding site [chemical binding]; other site 1029825009480 Switch I region; other site 1029825009481 G2 box; other site 1029825009482 G3 box; other site 1029825009483 Switch II region; other site 1029825009484 G4 box; other site 1029825009485 G5 box; other site 1029825009486 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 1029825009487 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1029825009488 Flavoprotein; Region: Flavoprotein; pfam02441 1029825009489 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1029825009490 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1029825009491 ABC1 family; Region: ABC1; pfam03109 1029825009492 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 1029825009493 active site 1029825009494 ATP binding site [chemical binding]; other site 1029825009495 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1029825009496 substrate binding site [chemical binding]; other site 1029825009497 activation loop (A-loop); other site 1029825009498 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1029825009499 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 1029825009500 S-adenosylmethionine binding site [chemical binding]; other site 1029825009501 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029825009502 active site 1029825009503 hypothetical protein; Provisional; Region: PRK00736 1029825009504 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1029825009505 putative transposase OrfB; Reviewed; Region: PHA02517 1029825009506 HTH-like domain; Region: HTH_21; pfam13276 1029825009507 Integrase core domain; Region: rve; pfam00665 1029825009508 Integrase core domain; Region: rve_3; pfam13683 1029825009509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1029825009510 Transposase; Region: HTH_Tnp_1; pfam01527 1029825009511 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1029825009512 FCD domain; Region: FCD; pfam07729 1029825009513 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1029825009514 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1029825009515 tetramerization interface [polypeptide binding]; other site 1029825009516 NAD(P) binding site [chemical binding]; other site 1029825009517 catalytic residues [active] 1029825009518 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1029825009519 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1029825009520 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1029825009521 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825009522 Walker A/P-loop; other site 1029825009523 ATP binding site [chemical binding]; other site 1029825009524 Q-loop/lid; other site 1029825009525 ABC transporter signature motif; other site 1029825009526 Walker B; other site 1029825009527 D-loop; other site 1029825009528 H-loop/switch region; other site 1029825009529 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1029825009530 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1029825009531 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825009532 Walker A/P-loop; other site 1029825009533 ATP binding site [chemical binding]; other site 1029825009534 Q-loop/lid; other site 1029825009535 ABC transporter signature motif; other site 1029825009536 Walker B; other site 1029825009537 D-loop; other site 1029825009538 H-loop/switch region; other site 1029825009539 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1029825009540 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1029825009541 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1029825009542 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1029825009543 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 1029825009544 dimer interface [polypeptide binding]; other site 1029825009545 conserved gate region; other site 1029825009546 putative PBP binding loops; other site 1029825009547 ABC-ATPase subunit interface; other site 1029825009548 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1029825009549 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1029825009550 Bacterial transcriptional regulator; Region: IclR; pfam01614 1029825009551 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1029825009552 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 1029825009553 E3 interaction surface; other site 1029825009554 lipoyl attachment site [posttranslational modification]; other site 1029825009555 e3 binding domain; Region: E3_binding; pfam02817 1029825009556 Serine hydrolase; Region: Ser_hydrolase; cl17834 1029825009557 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1029825009558 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_7; cd08512 1029825009559 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1029825009560 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1029825009561 tetramer interface [polypeptide binding]; other site 1029825009562 TPP-binding site [chemical binding]; other site 1029825009563 heterodimer interface [polypeptide binding]; other site 1029825009564 phosphorylation loop region [posttranslational modification] 1029825009565 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1029825009566 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1029825009567 alpha subunit interface [polypeptide binding]; other site 1029825009568 TPP binding site [chemical binding]; other site 1029825009569 heterodimer interface [polypeptide binding]; other site 1029825009570 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1029825009571 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1029825009572 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1029825009573 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1029825009574 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1029825009575 enoyl-CoA hydratase; Provisional; Region: PRK08138 1029825009576 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 1029825009577 substrate binding site [chemical binding]; other site 1029825009578 oxyanion hole (OAH) forming residues; other site 1029825009579 trimer interface [polypeptide binding]; other site 1029825009580 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1029825009581 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1029825009582 active site 1029825009583 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1029825009584 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1029825009585 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1029825009586 active site 1029825009587 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1029825009588 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1029825009589 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1029825009590 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_16; cd08502 1029825009591 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1029825009592 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 1029825009593 dimer interface [polypeptide binding]; other site 1029825009594 conserved gate region; other site 1029825009595 putative PBP binding loops; other site 1029825009596 ABC-ATPase subunit interface; other site 1029825009597 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1029825009598 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 1029825009599 dimer interface [polypeptide binding]; other site 1029825009600 conserved gate region; other site 1029825009601 putative PBP binding loops; other site 1029825009602 ABC-ATPase subunit interface; other site 1029825009603 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1029825009604 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825009605 Walker A/P-loop; other site 1029825009606 ATP binding site [chemical binding]; other site 1029825009607 Q-loop/lid; other site 1029825009608 ABC transporter signature motif; other site 1029825009609 Walker B; other site 1029825009610 D-loop; other site 1029825009611 H-loop/switch region; other site 1029825009612 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1029825009613 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1029825009614 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825009615 Walker A/P-loop; other site 1029825009616 ATP binding site [chemical binding]; other site 1029825009617 Q-loop/lid; other site 1029825009618 ABC transporter signature motif; other site 1029825009619 Walker B; other site 1029825009620 D-loop; other site 1029825009621 H-loop/switch region; other site 1029825009622 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1029825009623 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1029825009624 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1029825009625 DNA-binding site [nucleotide binding]; DNA binding site 1029825009626 FCD domain; Region: FCD; pfam07729 1029825009627 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1029825009628 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_7; cd08512 1029825009629 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1029825009630 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 1029825009631 dimer interface [polypeptide binding]; other site 1029825009632 conserved gate region; other site 1029825009633 putative PBP binding loops; other site 1029825009634 ABC-ATPase subunit interface; other site 1029825009635 potential frameshift: common BLAST hit: gi|376279041|ref|YP_005109074.1| peptide ABC transporter, permease protein, putative 1029825009636 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1029825009637 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 1029825009638 dimer interface [polypeptide binding]; other site 1029825009639 ABC-ATPase subunit interface; other site 1029825009640 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1029825009641 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1029825009642 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825009643 Walker A/P-loop; other site 1029825009644 ATP binding site [chemical binding]; other site 1029825009645 Q-loop/lid; other site 1029825009646 ABC transporter signature motif; other site 1029825009647 Walker B; other site 1029825009648 D-loop; other site 1029825009649 H-loop/switch region; other site 1029825009650 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1029825009651 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1029825009652 ABC transporter; Region: ABC_tran; pfam00005 1029825009653 Q-loop/lid; other site 1029825009654 ABC transporter signature motif; other site 1029825009655 Walker B; other site 1029825009656 D-loop; other site 1029825009657 H-loop/switch region; other site 1029825009658 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1029825009659 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1029825009660 amidase; Provisional; Region: PRK07486 1029825009661 Amidase; Region: Amidase; cl11426 1029825009662 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1029825009663 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1029825009664 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1029825009665 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 1029825009666 dimer interface [polypeptide binding]; other site 1029825009667 conserved gate region; other site 1029825009668 putative PBP binding loops; other site 1029825009669 ABC-ATPase subunit interface; other site 1029825009670 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 1029825009671 dimer interface [polypeptide binding]; other site 1029825009672 conserved gate region; other site 1029825009673 putative PBP binding loops; other site 1029825009674 ABC-ATPase subunit interface; other site 1029825009675 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1029825009676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825009677 Walker A/P-loop; other site 1029825009678 ATP binding site [chemical binding]; other site 1029825009679 Q-loop/lid; other site 1029825009680 ABC transporter signature motif; other site 1029825009681 Walker B; other site 1029825009682 D-loop; other site 1029825009683 H-loop/switch region; other site 1029825009684 TOBE domain; Region: TOBE_2; pfam08402 1029825009685 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 1029825009686 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1029825009687 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029825009688 catalytic residue [active] 1029825009689 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 1029825009690 intersubunit interface [polypeptide binding]; other site 1029825009691 active site 1029825009692 Zn2+ binding site [ion binding]; other site 1029825009693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1029825009694 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1029825009695 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1029825009696 Transposase; Region: HTH_Tnp_1; cl17663 1029825009697 putative transposase OrfB; Reviewed; Region: PHA02517 1029825009698 HTH-like domain; Region: HTH_21; pfam13276 1029825009699 Integrase core domain; Region: rve; pfam00665 1029825009700 Integrase core domain; Region: rve_3; pfam13683 1029825009701 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1029825009702 Rrf2 family protein; Region: rrf2_super; TIGR00738 1029825009703 Transcriptional regulator; Region: Rrf2; pfam02082 1029825009704 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1029825009705 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1029825009706 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1029825009707 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1029825009708 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 1029825009709 metal binding site [ion binding]; metal-binding site 1029825009710 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1029825009711 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1029825009712 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1029825009713 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 1029825009714 ABC-ATPase subunit interface; other site 1029825009715 dimer interface [polypeptide binding]; other site 1029825009716 putative PBP binding regions; other site 1029825009717 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1029825009718 metal binding site 2 [ion binding]; metal-binding site 1029825009719 putative DNA binding helix; other site 1029825009720 metal binding site 1 [ion binding]; metal-binding site 1029825009721 dimer interface [polypeptide binding]; other site 1029825009722 structural Zn2+ binding site [ion binding]; other site 1029825009723 FlgN protein; Region: FlgN; pfam05130 1029825009724 Rod binding protein; Region: Rod-binding; pfam10135 1029825009725 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1029825009726 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1029825009727 FHIPEP family; Region: FHIPEP; pfam00771 1029825009728 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1029825009729 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 1029825009730 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 1029825009731 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1029825009732 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 1029825009733 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 1029825009734 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 1029825009735 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 1029825009736 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1029825009737 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1029825009738 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 1029825009739 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1029825009740 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1029825009741 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1029825009742 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1029825009743 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1029825009744 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029825009745 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 1029825009746 DNA binding site [nucleotide binding] 1029825009747 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1029825009748 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 1029825009749 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1029825009750 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1029825009751 chemotaxis protein; Reviewed; Region: PRK12798 1029825009752 flagellar motor protein MotB; Validated; Region: motB; PRK05996 1029825009753 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1029825009754 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1029825009755 ligand binding site [chemical binding]; other site 1029825009756 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 1029825009757 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1029825009758 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1029825009759 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1029825009760 flagellin; Reviewed; Region: PRK12687 1029825009761 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1029825009762 potential frameshift: common BLAST hit: gi|376270493|ref|YP_005113538.1| Type V secretory pathway, adhesin AidA 1029825009763 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1029825009764 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1029825009765 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1029825009766 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 1029825009767 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1029825009768 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1029825009769 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1029825009770 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1029825009771 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1029825009772 Autotransporter beta-domain; Region: Autotransporter; smart00869 1029825009773 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1029825009774 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 1029825009775 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 1029825009776 putative ligand binding site [chemical binding]; other site 1029825009777 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1029825009778 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1029825009779 Walker A/P-loop; other site 1029825009780 ATP binding site [chemical binding]; other site 1029825009781 Q-loop/lid; other site 1029825009782 ABC transporter signature motif; other site 1029825009783 Walker B; other site 1029825009784 D-loop; other site 1029825009785 H-loop/switch region; other site 1029825009786 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1029825009787 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825009788 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 1029825009789 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 1029825009790 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825009791 TM-ABC transporter signature motif; other site 1029825009792 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1029825009793 HTH domain; Region: HTH_11; cl17392 1029825009794 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825009795 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1029825009796 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 1029825009797 NAD(P) binding site [chemical binding]; other site 1029825009798 catalytic residues [active] 1029825009799 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1029825009800 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 1029825009801 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1029825009802 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1029825009803 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1029825009804 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 1029825009805 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 1029825009806 tetramer interface [polypeptide binding]; other site 1029825009807 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 1029825009808 tetramer interface [polypeptide binding]; other site 1029825009809 active site 1029825009810 metal binding site [ion binding]; metal-binding site 1029825009811 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1029825009812 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1029825009813 NAD binding site [chemical binding]; other site 1029825009814 catalytic residues [active] 1029825009815 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 1029825009816 putative substrate binding pocket [chemical binding]; other site 1029825009817 trimer interface [polypeptide binding]; other site 1029825009818 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 1029825009819 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1029825009820 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1029825009821 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; cl17270 1029825009822 active site 1029825009823 ATP binding site [chemical binding]; other site 1029825009824 substrate binding site [chemical binding]; other site 1029825009825 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1029825009826 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 1029825009827 inhibitor-cofactor binding pocket; inhibition site 1029825009828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825009829 catalytic residue [active] 1029825009830 hypothetical protein; Provisional; Region: PRK07481 1029825009831 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 1029825009832 inhibitor-cofactor binding pocket; inhibition site 1029825009833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029825009834 catalytic residue [active] 1029825009835 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1029825009836 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 1029825009837 motif II; other site 1029825009838 Uncharacterized conserved protein [Function unknown]; Region: COG5441; cl02262 1029825009839 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 1029825009840 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1029825009841 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1029825009842 Bacterial transcriptional regulator; Region: IclR; pfam01614 1029825009843 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1029825009844 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1029825009845 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1029825009846 NAD(P) binding site [chemical binding]; other site 1029825009847 catalytic residues [active] 1029825009848 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1029825009849 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1029825009850 active site 1029825009851 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1029825009852 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 1029825009853 putative ligand binding site [chemical binding]; other site 1029825009854 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1029825009855 TM-ABC transporter signature motif; other site 1029825009856 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1029825009857 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1029825009858 TM-ABC transporter signature motif; other site 1029825009859 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1029825009860 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1029825009861 Walker A/P-loop; other site 1029825009862 ATP binding site [chemical binding]; other site 1029825009863 Q-loop/lid; other site 1029825009864 ABC transporter signature motif; other site 1029825009865 Walker B; other site 1029825009866 D-loop; other site 1029825009867 H-loop/switch region; other site 1029825009868 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1029825009869 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1029825009870 Walker A/P-loop; other site 1029825009871 ATP binding site [chemical binding]; other site 1029825009872 Q-loop/lid; other site 1029825009873 ABC transporter signature motif; other site 1029825009874 Walker B; other site 1029825009875 D-loop; other site 1029825009876 H-loop/switch region; other site 1029825009877 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 1029825009878 potential frameshift: common BLAST hit: gi|376270523|ref|YP_005113568.1| putative permease 1029825009879 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1029825009880 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1029825009881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029825009882 DNA-binding site [nucleotide binding]; DNA binding site 1029825009883 UTRA domain; Region: UTRA; pfam07702 1029825009884 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1029825009885 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1029825009886 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1029825009887 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 1029825009888 dimer interface [polypeptide binding]; other site 1029825009889 conserved gate region; other site 1029825009890 putative PBP binding loops; other site 1029825009891 ABC-ATPase subunit interface; other site 1029825009892 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 1029825009893 dimer interface [polypeptide binding]; other site 1029825009894 conserved gate region; other site 1029825009895 putative PBP binding loops; other site 1029825009896 ABC-ATPase subunit interface; other site 1029825009897 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1029825009898 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825009899 Walker A/P-loop; other site 1029825009900 ATP binding site [chemical binding]; other site 1029825009901 Q-loop/lid; other site 1029825009902 ABC transporter signature motif; other site 1029825009903 Walker B; other site 1029825009904 D-loop; other site 1029825009905 H-loop/switch region; other site 1029825009906 TOBE domain; Region: TOBE_2; pfam08402 1029825009907 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1029825009908 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1029825009909 active site 1029825009910 metal binding site [ion binding]; metal-binding site 1029825009911 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1029825009912 Sulfatase; Region: Sulfatase; cl17466 1029825009913 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1029825009914 NMT1-like family; Region: NMT1_2; pfam13379 1029825009915 substrate binding pocket [chemical binding]; other site 1029825009916 membrane-bound complex binding site; other site 1029825009917 hinge residues; other site 1029825009918 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1029825009919 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1029825009920 Walker A/P-loop; other site 1029825009921 ATP binding site [chemical binding]; other site 1029825009922 Q-loop/lid; other site 1029825009923 ABC transporter signature motif; other site 1029825009924 Walker B; other site 1029825009925 D-loop; other site 1029825009926 H-loop/switch region; other site 1029825009927 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1029825009928 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 1029825009929 dimer interface [polypeptide binding]; other site 1029825009930 conserved gate region; other site 1029825009931 putative PBP binding loops; other site 1029825009932 ABC-ATPase subunit interface; other site 1029825009933 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1029825009934 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1029825009935 nucleotide binding site [chemical binding]; other site 1029825009936 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1029825009937 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 1029825009938 N-terminal plug; other site 1029825009939 ligand-binding site [chemical binding]; other site 1029825009940 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1029825009941 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029825009942 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1029825009943 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 1029825009944 putative ligand binding site [chemical binding]; other site 1029825009945 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1029825009946 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1029825009947 TM-ABC transporter signature motif; other site 1029825009948 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1029825009949 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1029825009950 TM-ABC transporter signature motif; other site 1029825009951 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1029825009952 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825009953 Walker A/P-loop; other site 1029825009954 ATP binding site [chemical binding]; other site 1029825009955 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1029825009956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1029825009957 ABC transporter signature motif; other site 1029825009958 Walker B; other site 1029825009959 D-loop; other site 1029825009960 H-loop/switch region; other site 1029825009961 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1029825009962 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1029825009963 Walker A/P-loop; other site 1029825009964 ATP binding site [chemical binding]; other site 1029825009965 Q-loop/lid; other site 1029825009966 ABC transporter signature motif; other site 1029825009967 Walker B; other site 1029825009968 D-loop; other site 1029825009969 H-loop/switch region; other site 1029825009970 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1029825009971 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1029825009972 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1029825009973 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1029825009974 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 1029825009975 FeS/SAM binding site; other site 1029825009976 HemN C-terminal domain; Region: HemN_C; pfam06969 1029825009977 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1029825009978 MerR family regulatory protein; Region: MerR; pfam00376 1029825009979 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1029825009980 P-loop; other site 1029825009981 Magnesium ion binding site [ion binding]; other site 1029825009982 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1029825009983 P-loop; other site 1029825009984 Magnesium ion binding site [ion binding]; other site 1029825009985 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1029825009986 ParB-like nuclease domain; Region: ParB; smart00470