-- dump date 20111121_015456 -- class Genbank::misc_feature -- table misc_feature_note -- id note 455434000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 455434000002 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...; Region: AAA; cd00009 455434000003 Walker A motif; other site 455434000004 ATP binding site [chemical binding]; other site 455434000005 Walker B motif; other site 455434000006 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 455434000007 DnaA box-binding interface [nucleotide binding]; other site 455434000008 DNA polymerase III subunit beta; Provisional; Region: PRK14940 455434000009 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...; Region: beta_clamp; cd00140 455434000010 putative DNA binding surface [nucleotide binding]; other site 455434000011 dimer interface [polypeptide binding]; other site 455434000012 beta-clamp/clamp loader binding surface; other site 455434000013 beta-clamp/translesion DNA polymerase binding surface; other site 455434000014 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 455434000015 Walker A/P-loop; other site 455434000016 ATP binding site [chemical binding]; other site 455434000017 Q-loop/lid; other site 455434000018 Protein of unknown function (DUF721); Region: DUF721; cl02324 455434000019 DNA gyrase, A subunit; Region: gyrA; TIGR01063 455434000020 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 in...; Region: TOP4c; cd00187 455434000021 CAP-like domain; other site 455434000022 Active site [active] 455434000023 primary dimer interface [polypeptide binding]; other site 455434000024 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 455434000025 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 455434000026 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 455434000027 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 455434000028 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 455434000029 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 455434000030 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 455434000031 Major Outer Sheath Protein N-terminal region; Region: MOSP_N; pfam02707 455434000032 Major Outer Sheath Protein C-terminal region; Region: MOSP_C; pfam02722 455434000033 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 455434000034 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 455434000035 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK09616 455434000036 B3/4 domain; Region: B3_4; cl11458 455434000037 tRNA synthetase B5 domain; Region: B5; cl08394 455434000038 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 455434000039 dimer interface [polypeptide binding]; other site 455434000040 motif 1; other site 455434000041 motif 3; other site 455434000042 motif 2; other site 455434000043 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 455434000044 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 455434000045 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 455434000046 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 455434000047 binding surface 455434000048 TPR motif; other site 455434000049 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]; Region: COG1747 455434000050 transcription elongation factor GreA; Region: greA; TIGR01462 455434000051 domain; Region: GreA_GreB_N; pfam03449 455434000052 C-term; Region: GreA_GreB; pfam01272 455434000053 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 455434000054 metal ion-dependent adhesion site (MIDAS); other site 455434000055 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 455434000056 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 455434000057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455434000058 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; cl09110 455434000059 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 455434000060 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 455434000061 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 455434000062 Peptidase M16C associated; Region: M16C_assoc; pfam08367 455434000063 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 455434000064 FliG C-terminal domain; Region: FliG_C; pfam01706 455434000065 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 455434000066 Domain of unknown function DUF21; Region: DUF21; pfam01595 455434000067 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 455434000068 Transporter associated domain; Region: CorC_HlyC; pfam03471 455434000069 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 455434000070 Domain of unknown function DUF21; Region: DUF21; pfam01595 455434000071 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 455434000072 Transporter associated domain; Region: CorC_HlyC; pfam03471 455434000073 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 455434000074 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 455434000075 hinge; other site 455434000076 active site 455434000077 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 455434000078 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 455434000079 ring oligomerisation interface [polypeptide binding]; other site 455434000080 ATP/Mg binding site [chemical binding]; other site 455434000081 stacking interactions; other site 455434000082 hinge regions; other site 455434000083 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 455434000084 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 455434000085 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 455434000086 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 455434000087 metal binding site [ion binding]; metal-binding site 455434000088 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 455434000089 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 455434000090 Walker A/P-loop; other site 455434000091 ATP binding site [chemical binding]; other site 455434000092 Q-loop/lid; other site 455434000093 ABC transporter signature motif; other site 455434000094 Walker B; other site 455434000095 D-loop; other site 455434000096 H-loop/switch region; other site 455434000097 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...; Region: TM_ABC_iron-siderophores_like; cd06550 455434000098 ABC-ATPase subunit interface; other site 455434000099 dimer interface [polypeptide binding]; other site 455434000100 putative PBP binding regions; other site 455434000101 D-lactate dehydrogenase; Validated; Region: PRK08605 455434000102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455434000103 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 455434000104 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 455434000105 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 455434000106 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 455434000107 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455434000108 putative peptidoglycan binding site; other site 455434000109 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 catalyze...; Region: LT_GEWL; cd00254 455434000110 N-acetyl-D-glucosamine binding site [chemical binding]; other site 455434000111 catalytic residue [active] 455434000112 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 455434000113 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 455434000114 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...; Region: metallo-dependent_hydrolases; cl00281 455434000115 active site 455434000116 PSP1 C-terminal conserved region; Region: PSP1; cl00770 455434000117 Protein of unknown function (DUF327); Region: DUF327; cl00753 455434000118 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 455434000119 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 455434000120 Peptidase family M23; Region: Peptidase_M23; pfam01551 455434000121 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 455434000122 peptide chain release factor 1; Validated; Region: prfA; PRK00591 455434000123 RF-1 domain; Region: RF-1; cl02875 455434000124 RF-1 domain; Region: RF-1; cl02875 455434000125 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 455434000126 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; cl12011 455434000127 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 455434000128 dimer interface [polypeptide binding]; other site 455434000129 putative radical transfer pathway; other site 455434000130 diiron center [ion binding]; other site 455434000131 tyrosyl radical; other site 455434000132 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 455434000133 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 455434000134 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 455434000135 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 455434000136 oxaloacetate decarboxylase alpha subunit; Region: oadA; TIGR01108 455434000137 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 455434000138 active site 455434000139 catalytic residues [active] 455434000140 metal binding site [ion binding]; metal-binding site 455434000141 homodimer binding site [polypeptide binding]; other site 455434000142 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 455434000143 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 455434000144 carboxyltransferase (CT) interaction site; other site 455434000145 biotinylation site [posttranslational modification]; other site 455434000146 subunit; Region: OAD_beta; cl00816 455434000147 replicative DNA helicase; Region: DnaB; TIGR00665 455434000148 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 455434000149 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 455434000150 Walker A motif; other site 455434000151 ATP binding site [chemical binding]; other site 455434000152 Walker B motif; other site 455434000153 DNA binding loops [nucleotide binding] 455434000154 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 455434000155 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 455434000156 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 455434000157 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 455434000158 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 455434000159 dimer interface [polypeptide binding]; other site 455434000160 ssDNA binding site [nucleotide binding]; other site 455434000161 tetramer (dimer of dimers) interface [polypeptide binding]; other site 455434000162 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 455434000163 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; cl12011 455434000164 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 455434000165 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 455434000166 binding surface 455434000167 TPR motif; other site 455434000168 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 455434000169 binding surface 455434000170 TPR motif; other site 455434000171 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 455434000172 binding surface 455434000173 TPR motif; other site 455434000174 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 455434000175 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; cl14056 455434000176 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 455434000177 Clp amino terminal domain; Region: Clp_N; pfam02861 455434000178 Clp amino terminal domain; Region: Clp_N; pfam02861 455434000179 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...; Region: AAA; cd00009 455434000180 Walker A motif; other site 455434000181 ATP binding site [chemical binding]; other site 455434000182 Walker B motif; other site 455434000183 arginine finger; other site 455434000184 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...; Region: AAA; cd00009 455434000185 Walker A motif; other site 455434000186 ATP binding site [chemical binding]; other site 455434000187 Walker B motif; other site 455434000188 arginine finger; other site 455434000189 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 455434000190 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 455434000191 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 455434000192 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 455434000193 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 455434000194 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 455434000195 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...; Region: TM_PBP2; cd06261 455434000196 dimer interface [polypeptide binding]; other site 455434000197 conserved gate region; other site 455434000198 putative PBP binding loops; other site 455434000199 ABC-ATPase subunit interface; other site 455434000200 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 455434000201 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...; Region: TM_PBP2; cd06261 455434000202 putative PBP binding loops; other site 455434000203 ABC-ATPase subunit interface; other site 455434000204 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 455434000205 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 455434000206 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 455434000207 NAD(P) binding site [chemical binding]; other site 455434000208 homodimer interface [polypeptide binding]; other site 455434000209 substrate binding site [chemical binding]; other site 455434000210 active site 455434000211 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 455434000212 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 455434000213 inhibitor-cofactor binding pocket; inhibition site 455434000214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455434000215 catalytic residue [active] 455434000216 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 455434000217 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 455434000218 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 455434000219 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 455434000220 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 455434000221 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 455434000222 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 455434000223 GAF domain; Region: GAF; cl00853 455434000224 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...; Region: AAA; cd00009 455434000225 Walker A motif; other site 455434000226 ATP binding site [chemical binding]; other site 455434000227 Walker B motif; other site 455434000228 arginine finger; other site 455434000229 Uncharacterized conserved protein [Function unknown]; Region: COG1306 455434000230 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 455434000231 active site 455434000232 phosphorylation site [posttranslational modification] 455434000233 PilZ domain; Region: PilZ; cl01260 455434000234 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 455434000235 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 455434000236 ligand binding site [chemical binding]; other site 455434000237 flexible hinge region; other site 455434000238 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 455434000239 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 455434000240 ligand binding site [chemical binding]; other site 455434000241 flexible hinge region; other site 455434000242 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: PRK14648 455434000243 FAD binding domain; Region: FAD_binding_4; pfam01565 455434000244 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 455434000245 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14536 455434000246 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 455434000247 active site 455434000248 HIGH motif; other site 455434000249 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 455434000250 active site 455434000251 KMSKS motif; other site 455434000252 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 455434000253 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 455434000254 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455434000255 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...; Region: Sigma70_r4; cd06171 455434000256 DNA binding residues [nucleotide binding] 455434000257 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 455434000258 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 455434000259 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 455434000260 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455434000261 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 455434000262 TPR motif; other site 455434000263 binding surface 455434000264 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 455434000265 TPR motif; other site 455434000266 binding surface 455434000267 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 455434000268 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 455434000269 rRNA binding site [nucleotide binding]; other site 455434000270 predicted 30S ribosome binding site; other site 455434000271 chaperone protein DnaJ; Provisional; Region: PRK14292 455434000272 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...; Region: DnaJ; cd06257 455434000273 HSP70 interaction site [polypeptide binding]; other site 455434000274 AAK_UMPK-PyrH-Pf: UMP kinase (UMPK)-Pf, the mostly archaeal uridine monophosphate kinase (uridylate kinase) enzymes that catalyze UMP phosphorylation and play a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back...; Region: AAK_UMPK-PyrH-Pf; cd04253 455434000275 nucleotide binding site [chemical binding]; other site 455434000276 homodimeric interface [polypeptide binding]; other site 455434000277 uridine monophosphate binding site [chemical binding]; other site 455434000278 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...; Region: TlpA_like_family; cd02966 455434000279 catalytic residues [active] 455434000280 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 455434000281 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 455434000282 UvrD/REP helicase; Region: UvrD-helicase; cl14126 455434000283 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; cl14882 455434000284 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 455434000285 nucleotide binding region [chemical binding]; other site 455434000286 ATP-binding site [chemical binding]; other site 455434000287 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 455434000288 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 455434000289 active site 455434000290 metal binding site [ion binding]; metal-binding site 455434000291 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 455434000292 DNA polymerase I; Region: pola; TIGR00593 455434000293 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 455434000294 active site 455434000295 metal binding site 1 [ion binding]; metal-binding site 455434000296 putative 5' ssDNA interaction site; other site 455434000297 metal binding site 3; metal-binding site 455434000298 metal binding site 2 [ion binding]; metal-binding site 455434000299 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 455434000300 putative DNA binding site [nucleotide binding]; other site 455434000301 putative metal binding site [ion binding]; other site 455434000302 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 455434000303 active site 455434000304 catalytic site [active] 455434000305 substrate binding site [chemical binding]; other site 455434000306 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 455434000307 active site 455434000308 DNA binding site [nucleotide binding] 455434000309 catalytic site [active] 455434000310 BCCT family transporter; Region: BCCT; cl00569 455434000311 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 455434000312 active site 455434000313 metal binding site [ion binding]; metal-binding site 455434000314 Phosphotransferase enzyme family; Region: APH; pfam01636 455434000315 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 455434000316 active site 455434000317 ATP binding site [chemical binding]; other site 455434000318 substrate binding site [chemical binding]; other site 455434000319 dimer interface [polypeptide binding]; other site 455434000320 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 455434000321 6-phosphofructokinase; Provisional; Region: PRK03202 455434000322 active site 455434000323 ADP/pyrophosphate binding site [chemical binding]; other site 455434000324 dimerization interface [polypeptide binding]; other site 455434000325 allosteric effector site; other site 455434000326 fructose-1,6-bisphosphate binding site; other site 455434000327 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 455434000328 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 455434000329 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 455434000330 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 455434000331 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 455434000332 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH...; Region: Peptidase_C1B; cd00585 455434000333 trimer interface [polypeptide binding]; other site 455434000334 active site 455434000335 G bulge; other site 455434000336 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 455434000337 HflK protein; Region: hflK; TIGR01933 455434000338 FtsH protease regulator HflC; Provisional; Region: PRK11029 455434000339 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 455434000340 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 455434000341 dimer interface [polypeptide binding]; other site 455434000342 substrate binding site [chemical binding]; other site 455434000343 ATP binding site [chemical binding]; other site 455434000344 excinuclease ABC subunit B; Provisional; Region: PRK05298 455434000345 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 455434000346 ATP binding site [chemical binding]; other site 455434000347 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 455434000348 nucleotide binding region [chemical binding]; other site 455434000349 ATP-binding site [chemical binding]; other site 455434000350 Ultra-violet resistance protein B; Region: UvrB; pfam12344 455434000351 Major Outer Sheath Protein N-terminal region; Region: MOSP_N; pfam02707 455434000352 Major Outer Sheath Protein C-terminal region; Region: MOSP_C; pfam02722 455434000353 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...; Region: TM_PBP2; cl00427 455434000354 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 455434000355 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 455434000356 Walker A/P-loop; other site 455434000357 ATP binding site [chemical binding]; other site 455434000358 Q-loop/lid; other site 455434000359 ABC transporter signature motif; other site 455434000360 Walker B; other site 455434000361 D-loop; other site 455434000362 H-loop/switch region; other site 455434000363 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 455434000364 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 455434000365 FeS/SAM binding site; other site 455434000366 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 455434000367 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 455434000368 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 455434000369 active site 455434000370 substrate-binding site [chemical binding]; other site 455434000371 metal-binding site [ion binding] 455434000372 GTP binding site [chemical binding]; other site 455434000373 GTP-binding protein YchF; Reviewed; Region: PRK09601 455434000374 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 455434000375 G1 box; other site 455434000376 GTP/Mg2+ binding site [chemical binding]; other site 455434000377 Switch I region; other site 455434000378 G2 box; other site 455434000379 Switch II region; other site 455434000380 G3 box; other site 455434000381 G4 box; other site 455434000382 G5 box; other site 455434000383 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 455434000384 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 455434000385 putative catalytic site [active] 455434000386 putative metal binding site [ion binding]; other site 455434000387 putative phosphate binding site [ion binding]; other site 455434000388 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cl12127 455434000389 Protein of unknown function (DUF2715); Region: DUF2715; pfam10895 455434000390 Major Outer Sheath Protein N-terminal region; Region: MOSP_N; pfam02707 455434000391 Major Outer Sheath Protein C-terminal region; Region: MOSP_C; pfam02722 455434000392 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 455434000393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455434000394 Cation transport protein; Region: TrkH; cl10514 455434000395 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 455434000396 Cation transport protein; Region: TrkH; cl10514 455434000397 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 455434000398 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 455434000399 DNA binding site [nucleotide binding] 455434000400 active site 455434000401 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 455434000402 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 455434000403 Walker A/P-loop; other site 455434000404 ATP binding site [chemical binding]; other site 455434000405 Q-loop/lid; other site 455434000406 ABC transporter signature motif; other site 455434000407 Walker B; other site 455434000408 D-loop; other site 455434000409 H-loop/switch region; other site 455434000410 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 455434000411 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...; Region: TM_PBP2; cl00427 455434000412 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...; Region: TM_PBP2; cl00427 455434000413 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 455434000414 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 455434000415 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 455434000416 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 455434000417 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 455434000418 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 455434000419 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 455434000420 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 455434000421 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 455434000422 SLBB domain; Region: SLBB; pfam10531 455434000423 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 alpha-; Region: HCP_like; cl14655 455434000424 Divergent PAP2 family; Region: DUF212; cl00855 455434000425 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 455434000426 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 455434000427 RNA binding surface [nucleotide binding]; other site 455434000428 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 455434000429 active site 455434000430 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 455434000431 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455434000432 putative peptidoglycan binding site; other site 455434000433 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 455434000434 Peptidase family M23; Region: Peptidase_M23; pfam01551 455434000435 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...; Region: 4HBT; cd00586 455434000436 active site 455434000437 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455434000438 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 455434000439 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; cl11391 455434000440 prolyl-tRNA synthetase; Provisional; Region: PRK09194 455434000441 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 formation...; Region: ProRS_core_prok; cd00779 455434000442 dimer interface [polypeptide binding]; other site 455434000443 motif 1; other site 455434000444 active site 455434000445 motif 2; other site 455434000446 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-...; Region: ProRS-INS; cd04334 455434000447 putative deacylase active site [active] 455434000448 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 455434000449 active site 455434000450 motif 3; other site 455434000451 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-...; Region: ProRS_anticodon_short; cd00861 455434000452 anticodon binding site; other site 455434000453 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 455434000454 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...; Region: AAA; cd00009 455434000455 Walker A motif; other site 455434000456 ATP binding site [chemical binding]; other site 455434000457 Walker B motif; other site 455434000458 arginine finger; other site 455434000459 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 455434000460 Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins...; Region: TroA; cd01016 455434000461 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 455434000462 metal binding site [ion binding]; metal-binding site 455434000463 intersubunit interface [polypeptide binding]; other site 455434000464 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 455434000465 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 455434000466 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...; Region: TM_ABC_iron-siderophores_like; cd06550 455434000467 ABC-ATPase subunit interface; other site 455434000468 dimer interface [polypeptide binding]; other site 455434000469 putative PBP binding regions; other site 455434000470 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...; Region: TM_ABC_iron-siderophores_like; cd06550 455434000471 ABC-ATPase subunit interface; other site 455434000472 dimer interface [polypeptide binding]; other site 455434000473 putative PBP binding regions; other site 455434000474 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 455434000475 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 455434000476 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 455434000477 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 455434000478 catalytic core [active] 455434000479 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 455434000480 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 455434000481 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 455434000482 FMN-binding domain; Region: FMN_bind; cl01081 455434000483 Thiamine pyrophosphokinase; Region: TPK; cl09135 455434000484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 455434000485 Thiamine pyrophosphokinase; Region: TPK; cl09135 455434000486 Septum formation initiator; Region: DivIC; cl11433 455434000487 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 455434000488 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 455434000489 SmpB-tmRNA interface; other site 455434000490 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 455434000491 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 455434000492 Catalytic site [active] 455434000493 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 455434000494 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 455434000495 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; cl14056 455434000496 HemN C-terminal region; Region: HemN_C; pfam06969 455434000497 elongation factor Tu; Reviewed; Region: PRK00049 455434000498 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 455434000499 G1 box; other site 455434000500 GEF interaction site [polypeptide binding]; other site 455434000501 GTP/Mg2+ binding site [chemical binding]; other site 455434000502 Switch I region; other site 455434000503 G2 box; other site 455434000504 G3 box; other site 455434000505 Switch II region; other site 455434000506 G4 box; other site 455434000507 G5 box; other site 455434000508 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 455434000509 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 455434000510 Antibiotic Binding Site [chemical binding]; other site 455434000511 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 455434000512 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 455434000513 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 455434000514 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 455434000515 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 455434000516 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 455434000517 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 455434000518 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 455434000519 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 455434000520 putative translocon binding site; other site 455434000521 protein-rRNA interface [nucleotide binding]; other site 455434000522 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 455434000523 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...; Region: 30S_S3_KH; cd02412 455434000524 G-X-X-G motif; other site 455434000525 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 455434000526 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 455434000527 23S rRNA interface [nucleotide binding]; other site 455434000528 5S rRNA interface [nucleotide binding]; other site 455434000529 putative antibiotic binding site [chemical binding]; other site 455434000530 L25 interface [polypeptide binding]; other site 455434000531 L27 interface [polypeptide binding]; other site 455434000532 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...; Region: Ribosomal_L29_HIP; cl09943 455434000533 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 455434000534 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 455434000535 KOW motif; Region: KOW; cl00354 455434000536 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 455434000537 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 455434000538 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 455434000539 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 455434000540 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 455434000541 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 455434000542 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 455434000543 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 455434000544 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 455434000545 23S rRNA interface [nucleotide binding]; other site 455434000546 L21e interface [polypeptide binding]; other site 455434000547 5S rRNA interface [nucleotide binding]; other site 455434000548 L27 interface [polypeptide binding]; other site 455434000549 L5 interface [polypeptide binding]; other site 455434000550 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 455434000551 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 455434000552 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 455434000553 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...; Region: Ribosomal_L30; cd01658 455434000554 23S rRNA binding site [nucleotide binding]; other site 455434000555 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 455434000556 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 455434000557 SecY translocase; Region: SecY; pfam00344 455434000558 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 455434000559 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 455434000560 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 455434000561 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 455434000562 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 455434000563 alphaNTD - beta interaction site [polypeptide binding]; other site 455434000564 alphaNTD homodimer interface [polypeptide binding]; other site 455434000565 alphaNTD - beta' interaction site [polypeptide binding]; other site 455434000566 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 455434000567 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 455434000568 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 455434000569 dimer interface [polypeptide binding]; other site 455434000570 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 455434000571 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 455434000572 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 455434000573 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 455434000574 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 455434000575 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 455434000576 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 455434000577 anti sigma factor interaction site; other site 455434000578 regulatory phosphorylation site [posttranslational modification]; other site 455434000579 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 455434000580 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 455434000581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 455434000582 homodimer interface [polypeptide binding]; other site 455434000583 catalytic residue [active] 455434000584 Cobalt transport protein; Region: CbiQ; cl00463 455434000585 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 455434000586 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 455434000587 Walker A/P-loop; other site 455434000588 ATP binding site [chemical binding]; other site 455434000589 Q-loop/lid; other site 455434000590 ABC transporter signature motif; other site 455434000591 Walker B; other site 455434000592 D-loop; other site 455434000593 H-loop/switch region; other site 455434000594 BioY family; Region: BioY; cl00560 455434000595 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 455434000596 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 455434000597 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 455434000598 primosomal protein N'; Region: priA; TIGR00595 455434000599 ATP binding site [chemical binding]; other site 455434000600 putative Mg++ binding site [ion binding]; other site 455434000601 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; cl14882 455434000602 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 455434000603 active site 455434000604 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 455434000605 anti sigma factor interaction site; other site 455434000606 regulatory phosphorylation site [posttranslational modification]; other site 455434000607 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 455434000608 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 455434000609 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 455434000610 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 455434000611 putative homodimer interface [polypeptide binding]; other site 455434000612 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 455434000613 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 455434000614 23S rRNA interface [nucleotide binding]; other site 455434000615 L7/L12 interface [polypeptide binding]; other site 455434000616 putative thiostrepton binding site; other site 455434000617 L25 interface [polypeptide binding]; other site 455434000618 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...; Region: Ribosomal_L1; cd00403 455434000619 mRNA/rRNA interface [nucleotide binding]; other site 455434000620 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...; Region: Ribosomal_L10; cd05797 455434000621 23S rRNA interface [nucleotide binding]; other site 455434000622 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 455434000623 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 455434000624 core dimer interface [polypeptide binding]; other site 455434000625 peripheral dimer interface [polypeptide binding]; other site 455434000626 L10 interface [polypeptide binding]; other site 455434000627 L11 interface [polypeptide binding]; other site 455434000628 putative EF-Tu interaction site [polypeptide binding]; other site 455434000629 putative EF-G interaction site [polypeptide binding]; other site 455434000630 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 455434000631 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; cl04593 455434000632 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 455434000633 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 455434000634 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 455434000635 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 455434000636 RPB10 interaction site [polypeptide binding]; other site 455434000637 RPB1 interaction site [polypeptide binding]; other site 455434000638 RPB11 interaction site [polypeptide binding]; other site 455434000639 RPB3 interaction site [polypeptide binding]; other site 455434000640 RPB12 interaction site [polypeptide binding]; other site 455434000641 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 455434000642 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 455434000643 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 455434000644 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 455434000645 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 455434000646 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 455434000647 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 455434000648 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 455434000649 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 455434000650 Peptidase family M23; Region: Peptidase_M23; pfam01551 455434000651 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 455434000652 DNA binding site [nucleotide binding] 455434000653 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 455434000654 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 455434000655 S17 interaction site [polypeptide binding]; other site 455434000656 S8 interaction site; other site 455434000657 16S rRNA interaction site [nucleotide binding]; other site 455434000658 streptomycin interaction site [chemical binding]; other site 455434000659 23S rRNA interaction site [nucleotide binding]; other site 455434000660 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 455434000661 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 455434000662 MoxR-like ATPases [General function prediction only]; Region: COG0714 455434000663 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 455434000664 metal ion-dependent adhesion site (MIDAS); other site 455434000665 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 455434000666 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 455434000667 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 455434000668 active site 455434000669 metal binding site [ion binding]; metal-binding site 455434000670 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 455434000671 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 455434000672 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 higher-...; Region: HU_IHF; cd00591 455434000673 IHF dimer interface [polypeptide binding]; other site 455434000674 IHF - DNA interface [nucleotide binding]; other site 455434000675 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 455434000676 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 455434000677 putative active site [active] 455434000678 catalytic triad [active] 455434000679 putative dimer interface [polypeptide binding]; other site 455434000680 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 455434000681 transcription termination factor Rho; Provisional; Region: rho; PRK09376 455434000682 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 455434000683 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...; Region: Rho_CSD; cd04459 455434000684 RNA binding site [nucleotide binding]; other site 455434000685 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...; Region: rho_factor; cd01128 455434000686 multimer interface [polypeptide binding]; other site 455434000687 Walker A motif; other site 455434000688 ATP binding site [chemical binding]; other site 455434000689 Walker B motif; other site 455434000690 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 455434000691 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 455434000692 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 455434000693 active site 455434000694 catalytic site [active] 455434000695 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 455434000696 metal binding site [ion binding]; metal-binding site 455434000697 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 455434000698 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 455434000699 ligand binding site [chemical binding]; other site 455434000700 flexible hinge region; other site 455434000701 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 455434000702 TPR motif; other site 455434000703 binding surface 455434000704 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 455434000705 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 455434000706 ligand binding site [chemical binding]; other site 455434000707 flexible hinge region; other site 455434000708 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 455434000709 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 455434000710 intersubunit interface [polypeptide binding]; other site 455434000711 active site 455434000712 catalytic residue [active] 455434000713 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 455434000714 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 455434000715 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 455434000716 TPR motif; other site 455434000717 binding surface 455434000718 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 455434000719 TPR motif; other site 455434000720 binding surface 455434000721 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 455434000722 Radical SAM; Region: Elp3; smart00729 455434000723 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 455434000724 FeS/SAM binding site; other site 455434000725 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 455434000726 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 455434000727 active site 455434000728 NTP binding site [chemical binding]; other site 455434000729 metal binding triad [ion binding]; metal-binding site 455434000730 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 455434000731 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 455434000732 ParB-like nuclease domain; Region: ParBc; cl02129 455434000733 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 455434000734 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...; Region: ParA; cd02042 455434000735 P-loop; other site 455434000736 Magnesium ion binding site [ion binding]; other site 455434000737 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...; Region: ParA; cd02042 455434000738 Magnesium ion binding site [ion binding]; other site 455434000739 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 455434000740 catalytic motif [active] 455434000741 Zn binding site [ion binding]; other site 455434000742 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; cl04270 455434000743 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 455434000744 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 455434000745 C-terminal peptidase (prc); Region: prc; TIGR00225 455434000746 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 455434000747 protein binding site [polypeptide binding]; other site 455434000748 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 455434000749 Catalytic dyad [active] 455434000750 bifunctional cytidylate kinase/ribosomal protein S1; Provisional; Region: PRK12269 455434000751 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 455434000752 Active site [active] 455434000753 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 455434000754 CMP-binding site; other site 455434000755 The sites determining sugar specificity; other site 455434000756 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 455434000757 RNA binding site [nucleotide binding]; other site 455434000758 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 455434000759 RNA binding site [nucleotide binding]; other site 455434000760 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 455434000761 RNA binding site [nucleotide binding]; other site 455434000762 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 455434000763 RNA binding site [nucleotide binding]; other site 455434000764 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 455434000765 RNA binding site [nucleotide binding]; other site 455434000766 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 455434000767 RNA binding site [nucleotide binding]; other site 455434000768 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 455434000769 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 455434000770 active site 455434000771 (T/H)XGH motif; other site 455434000772 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 455434000773 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 455434000774 active site 455434000775 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 455434000776 S-adenosylmethionine binding site [chemical binding]; other site 455434000777 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 455434000778 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 455434000779 active site 455434000780 motif I; other site 455434000781 motif II; other site 455434000782 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 455434000783 motif II; other site 455434000784 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; cl11391 455434000785 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; cl09108 455434000786 phosphate binding site [ion binding]; other site 455434000787 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 455434000788 ligand binding site [chemical binding]; other site 455434000789 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 455434000790 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 455434000791 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 455434000792 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 455434000793 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 455434000794 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 455434000795 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 455434000796 CoA-binding site [chemical binding]; other site 455434000797 ATP-binding [chemical binding]; other site 455434000798 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 455434000799 Sporulation related domain; Region: SPOR; cl10051 455434000800 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 455434000801 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 455434000802 ligand binding site [chemical binding]; other site 455434000803 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 455434000804 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 455434000805 Walker A/P-loop; other site 455434000806 ATP binding site [chemical binding]; other site 455434000807 Q-loop/lid; other site 455434000808 ABC transporter signature motif; other site 455434000809 Walker B; other site 455434000810 D-loop; other site 455434000811 H-loop/switch region; other site 455434000812 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 455434000813 Walker A/P-loop; other site 455434000814 ATP binding site [chemical binding]; other site 455434000815 Q-loop/lid; other site 455434000816 ABC transporter signature motif; other site 455434000817 Walker B; other site 455434000818 D-loop; other site 455434000819 H-loop/switch region; other site 455434000820 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 455434000821 TM-ABC transporter signature motif; other site 455434000822 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 455434000823 TM-ABC transporter signature motif; other site 455434000824 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 455434000825 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 455434000826 ATP binding site [chemical binding]; other site 455434000827 Mg2+ binding site [ion binding]; other site 455434000828 G-X-G motif; other site 455434000829 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 455434000830 ATP binding site [chemical binding]; other site 455434000831 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 455434000832 CTP synthetase; Validated; Region: pyrG; PRK05380 455434000833 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...; Region: CTGs; cd03113 455434000834 Catalytic site [active] 455434000835 Active site [active] 455434000836 UTP binding site [chemical binding]; other site 455434000837 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 455434000838 active site 455434000839 putative oxyanion hole; other site 455434000840 catalytic triad [active] 455434000841 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 455434000842 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 455434000843 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 455434000844 RNA binding surface [nucleotide binding]; other site 455434000845 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 455434000846 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis...; Region: PASTA_pknB; cd06577 455434000847 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 455434000848 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...; Region: PBPb; cd00134 455434000849 substrate binding pocket [chemical binding]; other site 455434000850 membrane-bound complex binding site; other site 455434000851 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 455434000852 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...; Region: PBPb; cd00134 455434000853 substrate binding pocket [chemical binding]; other site 455434000854 membrane-bound complex binding site; other site 455434000855 hinge residues; other site 455434000856 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 455434000857 dimer interface [polypeptide binding]; other site 455434000858 ssDNA binding site [nucleotide binding]; other site 455434000859 tetramer (dimer of dimers) interface [polypeptide binding]; other site 455434000860 Domain of unknown function (DUF368); Region: DUF368; cl00893 455434000861 Major Outer Sheath Protein N-terminal region; Region: MOSP_N; pfam02707 455434000862 Major Outer Sheath Protein C-terminal region; Region: MOSP_C; pfam02722 455434000863 Protein of unknown function (DUF2715); Region: DUF2715; pfam10895 455434000864 Protein of unknown function (DUF2715); Region: DUF2715; pfam10895 455434000865 Major Outer Sheath Protein N-terminal region; Region: MOSP_N; pfam02707 455434000866 Major Outer Sheath Protein C-terminal region; Region: MOSP_C; pfam02722 455434000867 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 455434000868 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 455434000869 ligand binding site [chemical binding]; other site 455434000870 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 455434000871 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 455434000872 Walker A/P-loop; other site 455434000873 ATP binding site [chemical binding]; other site 455434000874 Q-loop/lid; other site 455434000875 ABC transporter signature motif; other site 455434000876 Walker B; other site 455434000877 D-loop; other site 455434000878 H-loop/switch region; other site 455434000879 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 455434000880 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 455434000881 TM-ABC transporter signature motif; other site 455434000882 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 455434000883 TM-ABC transporter signature motif; other site 455434000884 Family of unknown function (DUF490); Region: DUF490; pfam04357 455434000885 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 455434000886 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455434000887 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455434000888 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455434000889 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 455434000890 Surface antigen; Region: Bac_surface_Ag; cl03097 455434000891 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 455434000892 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 455434000893 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 455434000894 MutS domain I; Region: MutS_I; pfam01624 455434000895 MutS domain II; Region: MutS_II; pfam05188 455434000896 MutS family domain IV; Region: MutS_IV; pfam05190 455434000897 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 455434000898 Walker A/P-loop; other site 455434000899 ATP binding site [chemical binding]; other site 455434000900 Q-loop/lid; other site 455434000901 ABC transporter signature motif; other site 455434000902 Walker B; other site 455434000903 D-loop; other site 455434000904 H-loop/switch region; other site 455434000905 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...; Region: SHMT; cd00378 455434000906 dimer interface [polypeptide binding]; other site 455434000907 glycine-pyridoxal phosphate binding site [chemical binding]; other site 455434000908 active site 455434000909 folate binding site [chemical binding]; other site 455434000910 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 455434000911 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...; Region: AAA; cd00009 455434000912 Walker A motif; other site 455434000913 ATP binding site [chemical binding]; other site 455434000914 Walker B motif; other site 455434000915 arginine finger; other site 455434000916 6-phosphogluconate dehydrogenase, decarboxylating; Region: gnd; TIGR00873 455434000917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455434000918 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 455434000919 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 455434000920 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 455434000921 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 455434000922 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 455434000923 Competence protein; Region: Competence; cl00471 455434000924 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; cl12011 455434000925 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; cl09940 455434000926 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 455434000927 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 455434000928 active site 455434000929 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 455434000930 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 455434000931 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 455434000932 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 455434000933 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 455434000934 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 455434000935 cytidylate kinase; Provisional; Region: PRK04182 455434000936 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 455434000937 CMP-binding site; other site 455434000938 The sites determining sugar specificity; other site 455434000939 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 455434000940 endonuclease III; Region: ENDO3c; smart00478 455434000941 minor groove reading motif; other site 455434000942 helix-hairpin-helix signature motif; other site 455434000943 substrate binding pocket [chemical binding]; other site 455434000944 active site 455434000945 transcription-repair coupling factor; Provisional; Region: PRK10689 455434000946 transcription-repair coupling factor; Region: mfd; TIGR00580 455434000947 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 455434000948 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 455434000949 ATP binding site [chemical binding]; other site 455434000950 putative Mg++ binding site [ion binding]; other site 455434000951 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 455434000952 nucleotide binding region [chemical binding]; other site 455434000953 ATP-binding site [chemical binding]; other site 455434000954 TRCF domain; Region: TRCF; pfam03461 455434000955 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 455434000956 Mg++ binding site [ion binding]; other site 455434000957 putative catalytic motif [active] 455434000958 putative substrate binding site [chemical binding]; other site 455434000959 Protein of unknown function (DUF2715); Region: DUF2715; pfam10895 455434000960 Protein of unknown function (DUF2715); Region: DUF2715; pfam10895 455434000961 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 455434000962 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 455434000963 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 455434000964 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 455434000965 putative catalytic cysteine [active] 455434000966 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 455434000967 nucleotide binding site [chemical binding]; other site 455434000968 homotetrameric interface [polypeptide binding]; other site 455434000969 putative phosphate binding site [ion binding]; other site 455434000970 putative allosteric binding site; other site 455434000971 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 455434000972 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 455434000973 RNA/DNA hybrid binding site [nucleotide binding]; other site 455434000974 active site 455434000975 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 455434000976 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...; Region: TMPK; cd01672 455434000977 TMP-binding site; other site 455434000978 ATP-binding site [chemical binding]; other site 455434000979 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 455434000980 RNA/DNA binding site [nucleotide binding]; other site 455434000981 RRM dimerization site [polypeptide binding]; other site 455434000982 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 455434000983 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 455434000984 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 455434000985 Uncharacterized conserved protein [Function unknown]; Region: COG1543 455434000986 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 455434000987 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 455434000988 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 455434000989 putative acyl-acceptor binding pocket; other site 455434000990 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 455434000991 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 455434000992 putative binding surface; other site 455434000993 active site 455434000994 P2 response regulator binding domain; Region: P2; pfam07194 455434000995 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 455434000996 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 455434000997 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 455434000998 ATP binding site [chemical binding]; other site 455434000999 Mg2+ binding site [ion binding]; other site 455434001000 G-X-G motif; other site 455434001001 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 455434001002 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 455434001003 putative CheA interaction surface; other site 455434001004 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 455434001005 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; cl12011 455434001006 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 455434001007 CheC-like family; Region: CheC; pfam04509 455434001008 Response regulator receiver domain; Region: Response_reg; pfam00072 455434001009 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 455434001010 active site 455434001011 phosphorylation site [posttranslational modification] 455434001012 intermolecular recognition site; other site 455434001013 dimerization interface [polypeptide binding]; other site 455434001014 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 455434001015 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 455434001016 Walker A/P-loop; other site 455434001017 ATP binding site [chemical binding]; other site 455434001018 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 455434001019 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 455434001020 ABC transporter signature motif; other site 455434001021 Walker B; other site 455434001022 D-loop; other site 455434001023 H-loop/switch region; other site 455434001024 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 455434001025 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 455434001026 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 455434001027 5S rRNA interface [nucleotide binding]; other site 455434001028 CTC domain interface; other site 455434001029 L16 interface [polypeptide binding]; other site 455434001030 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 455434001031 Ligand Binding Site [chemical binding]; other site 455434001032 B3/4 domain; Region: B3_4; cl11458 455434001033 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 455434001034 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 455434001035 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 455434001036 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 455434001037 nucleotide binding region [chemical binding]; other site 455434001038 SEC-C motif; Region: SEC-C; cl12132 455434001039 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 455434001040 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 455434001041 ATP binding site [chemical binding]; other site 455434001042 putative Mg++ binding site [ion binding]; other site 455434001043 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; cl14882 455434001044 Predicted integral membrane protein [Function unknown]; Region: COG5522; cl02331 455434001045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 455434001046 MraZ protein; Region: MraZ; pfam02381 455434001047 MraZ protein; Region: MraZ; pfam02381 455434001048 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 455434001049 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; cl12011 455434001050 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 455434001051 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 455434001052 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 455434001053 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 455434001054 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 455434001055 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 455434001056 Cell division protein FtsQ; Region: FtsQ; pfam03799 455434001057 cell division protein FtsA; Region: ftsA; TIGR01174 455434001058 Cell division protein FtsA; Region: FtsA; cl11496 455434001059 Cell division protein FtsA; Region: FtsA; cl11496 455434001060 cell division protein FtsZ; Validated; Region: PRK09330 455434001061 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...; Region: FtsZ_type1; cd02201 455434001062 nucleotide binding site [chemical binding]; other site 455434001063 SulA interaction site; other site 455434001064 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 455434001065 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 455434001066 Int/Topo IB signature motif; other site 455434001067 active site 455434001068 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 455434001069 TPR motif; other site 455434001070 binding surface 455434001071 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 455434001072 DNA topoisomerase I; Validated; Region: PRK05582 455434001073 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 455434001074 active site 455434001075 interdomain interaction site; other site 455434001076 putative metal-binding site [ion binding]; other site 455434001077 nucleotide binding site [chemical binding]; other site 455434001078 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...; Region: TOP1Ac; cd00186 455434001079 domain I; other site 455434001080 DNA binding groove [nucleotide binding] 455434001081 phosphate binding site [ion binding]; other site 455434001082 domain II; other site 455434001083 domain III; other site 455434001084 nucleotide binding site [chemical binding]; other site 455434001085 catalytic site [active] 455434001086 domain IV; other site 455434001087 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 455434001088 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 455434001089 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 455434001090 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 455434001091 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 455434001092 DNA binding site [nucleotide binding] 455434001093 Int/Topo IB signature motif; other site 455434001094 active site 455434001095 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 455434001096 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 455434001097 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 455434001098 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 455434001099 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 455434001100 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 455434001101 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 455434001102 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 455434001103 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 455434001104 FliG C-terminal domain; Region: FliG_C; pfam01706 455434001105 flagellar assembly protein H; Validated; Region: fliH; PRK06669 455434001106 Flagellar assembly protein FliH; Region: FliH; pfam02108 455434001107 ATPase FliI/YscN family; Region: fliI_yscN; TIGR01026 455434001108 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 455434001109 Walker A motif/ATP binding site; other site 455434001110 Walker B motif; other site 455434001111 Flagellar FliJ protein; Region: FliJ; cl09161 455434001112 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 455434001113 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 455434001114 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 455434001115 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 455434001116 motif II; other site 455434001117 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 455434001118 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 455434001119 protein-export membrane protein SecD; Region: secD; TIGR01129 455434001120 Protein export membrane protein; Region: SecD_SecF; cl14618 455434001121 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 455434001122 Protein export membrane protein; Region: SecD_SecF; cl14618 455434001123 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 455434001124 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)...; Region: phosphohexomutase; cl03757 455434001125 active site 455434001126 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 455434001127 substrate binding site [chemical binding]; other site 455434001128 metal binding site [ion binding]; metal-binding site 455434001129 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 455434001130 signal recognition particle protein; Region: ffh; TIGR00959 455434001131 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 455434001132 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 455434001133 GTP binding site [chemical binding]; other site 455434001134 Signal peptide binding domain; Region: SRP_SPB; pfam02978 455434001135 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 455434001136 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 455434001137 putative active site [active] 455434001138 catalytic triad [active] 455434001139 putative dimer interface [polypeptide binding]; other site 455434001140 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 455434001141 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 455434001142 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 455434001143 Survival protein SurE; Region: SurE; cl00448 455434001144 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 455434001145 binding surface 455434001146 TPR motif; other site 455434001147 Uncharacterized conserved protein [Function unknown]; Region: COG3391 455434001148 Uncharacterized conserved protein [Function unknown]; Region: COG3391 455434001149 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 455434001150 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 455434001151 V-type ATP synthase subunit A; Provisional; Region: PRK04192 455434001152 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 455434001153 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 455434001154 Walker A motif/ATP binding site; other site 455434001155 Walker B motif; other site 455434001156 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 455434001157 V-type ATP synthase subunit B; Provisional; Region: PRK02118 455434001158 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 455434001159 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the...; Region: V_A-ATPase_B; cd01135 455434001160 Walker A motif homologous position; other site 455434001161 Walker B motif; other site 455434001162 ATP synthase subunit D; Region: ATP-synt_D; cl00613 455434001163 Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]; Region: NtpI; COG1269 455434001164 V-type ATP synthase subunit K; Validated; Region: PRK06649 455434001165 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 455434001166 Uncharacterized lipoprotein NlpE involved in copper resistance; Region: NlpE; cl01138 455434001167 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 455434001168 DHH family; Region: DHH; pfam01368 455434001169 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 Ham1-...; Region: HAM1; cd00515 455434001170 active site 455434001171 dimerization interface [polypeptide binding]; other site 455434001172 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 455434001173 putative CheA interaction surface; other site 455434001174 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 455434001175 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 455434001176 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455434001177 catalytic residue [active] 455434001178 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 455434001179 ATP-NAD kinase; Region: NAD_kinase; pfam01513 455434001180 DNA repair protein RecN; Region: recN; TIGR00634 455434001181 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 455434001182 Walker A/P-loop; other site 455434001183 ATP binding site [chemical binding]; other site 455434001184 Q-loop/lid; other site 455434001185 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 455434001186 ABC transporter signature motif; other site 455434001187 Walker B; other site 455434001188 D-loop; other site 455434001189 H-loop/switch region; other site 455434001190 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455434001191 putative peptidoglycan binding site; other site 455434001192 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 455434001193 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455434001194 putative peptidoglycan binding site; other site 455434001195 Peptidase family M23; Region: Peptidase_M23; pfam01551 455434001196 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 455434001197 conserved cys residue [active] 455434001198 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 455434001199 GcpE protein; Region: GcpE; pfam04551 455434001200 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 455434001201 elongation factor G; Reviewed; Region: PRK13351 455434001202 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 455434001203 G1 box; other site 455434001204 putative GEF interaction site [polypeptide binding]; other site 455434001205 GTP/Mg2+ binding site [chemical binding]; other site 455434001206 Switch I region; other site 455434001207 G2 box; other site 455434001208 G3 box; other site 455434001209 Switch II region; other site 455434001210 G4 box; other site 455434001211 G5 box; other site 455434001212 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...; Region: EFG_mtEFG_II; cd04088 455434001213 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 455434001214 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...; Region: EFG_mtEFG_C; cd03713 455434001215 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 455434001216 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 455434001217 HIGH motif; other site 455434001218 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 455434001219 active site 455434001220 KMSKS motif; other site 455434001221 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 455434001222 tRNA binding surface [nucleotide binding]; other site 455434001223 anticodon binding site; other site 455434001224 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 455434001225 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 455434001226 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 455434001227 active site 455434001228 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 455434001229 binding surface 455434001230 TPR motif; other site 455434001231 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 455434001232 binding surface 455434001233 TPR motif; other site 455434001234 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 455434001235 binding surface 455434001236 TPR motif; other site 455434001237 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 455434001238 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; cl12011 455434001239 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 455434001240 binding surface 455434001241 TPR motif; other site 455434001242 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 455434001243 binding surface 455434001244 TPR motif; other site 455434001245 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 455434001246 binding surface 455434001247 TPR motif; other site 455434001248 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 455434001249 binding surface 455434001250 TPR motif; other site 455434001251 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 455434001252 TPR motif; other site 455434001253 binding surface 455434001254 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 455434001255 TPR motif; other site 455434001256 binding surface 455434001257 Restriction endonuclease; Region: Mrr_cat; cl00747 455434001258 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14672 455434001259 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 455434001260 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 455434001261 Domain of unknown function DUF28; Region: DUF28; cl00361 455434001262 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 455434001263 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 455434001264 active site 455434001265 dimer interface [polypeptide binding]; other site 455434001266 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 455434001267 dimer interface [polypeptide binding]; other site 455434001268 active site 455434001269 Acetokinase family; Region: Acetate_kinase; cl01029 455434001270 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 455434001271 putative active site [active] 455434001272 glucose-6-phosphate 1-dehydrogenase; Region: zwf; TIGR00871 455434001273 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 455434001274 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 455434001275 Protein of unknown function (DUF2715); Region: DUF2715; pfam10895 455434001276 TIGR03546 family protein; Region: TIGR03546 455434001277 TIGR03545 family protein; Region: TIGR03545 455434001278 TIGR03545 family protein; Region: TIGR03545 455434001279 FecR protein; Region: FecR; pfam04773 455434001280 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 connected by an extended linker. The...; Region: HAMP; cl01054 455434001281 cyclase homology domain; Region: CHD; cd07302 455434001282 nucleotidyl binding site; other site 455434001283 metal binding site [ion binding]; metal-binding site 455434001284 dimer interface [polypeptide binding]; other site 455434001285 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 455434001286 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 455434001287 Cache domain; Region: Cache_1; pfam02743 455434001288 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 connected by an extended linker. The...; Region: HAMP; cd06225 455434001289 dimerization interface [polypeptide binding]; other site 455434001290 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 455434001291 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 455434001292 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455434001293 YceG-like family; Region: YceG; pfam02618 455434001294 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 455434001295 dimerization interface [polypeptide binding]; other site 455434001296 DNA primase, catalytic core; Region: dnaG; TIGR01391 455434001297 CHC2 zinc finger; Region: zf-CHC2; cl02597 455434001298 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 455434001299 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 455434001300 active site 455434001301 metal binding site [ion binding]; metal-binding site 455434001302 interdomain interaction site; other site 455434001303 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 455434001304 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 455434001305 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 455434001306 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455434001307 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 455434001308 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...; Region: Sigma70_r4; cd06171 455434001309 DNA binding residues [nucleotide binding] 455434001310 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 455434001311 Putative zinc ribbon domain; Region: DUF164; pfam02591 455434001312 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 455434001313 TPR motif; other site 455434001314 binding surface 455434001315 rod shape-determining protein MreB; Provisional; Region: PRK13927 455434001316 Cell division protein FtsA; Region: FtsA; cl11496 455434001317 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 455434001318 rod shape-determining protein MreC; Region: MreC; pfam04085 455434001319 rod shape-determining protein MreD; Region: MreD; cl01087 455434001320 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 455434001321 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 455434001322 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 455434001323 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 455434001324 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 455434001325 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 455434001326 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 455434001327 Hexokinase [Carbohydrate transport and metabolism]; Region: COG5026 455434001328 Hexokinase; Region: Hexokinase_1; pfam00349 455434001329 Hexokinase; Region: Hexokinase_2; pfam03727 455434001330 FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]; Region: Tig; COG0544 455434001331 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 455434001332 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 455434001333 oligomer interface [polypeptide binding]; other site 455434001334 active site residues [active] 455434001335 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 455434001336 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 455434001337 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...; Region: AAA; cd00009 455434001338 Walker A motif; other site 455434001339 ATP binding site [chemical binding]; other site 455434001340 Walker B motif; other site 455434001341 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 455434001342 peroxiredoxin; Region: AhpC; TIGR03137 455434001343 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...; Region: PRX_Typ2cys; cd03015 455434001344 dimer interface [polypeptide binding]; other site 455434001345 decamer (pentamer of dimers) interface [polypeptide binding]; other site 455434001346 catalytic triad [active] 455434001347 peroxidatic and resolving cysteines [active] 455434001348 GTP-binding protein LepA; Provisional; Region: PRK05433 455434001349 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 455434001350 G1 box; other site 455434001351 putative GEF interaction site [polypeptide binding]; other site 455434001352 GTP/Mg2+ binding site [chemical binding]; other site 455434001353 Switch I region; other site 455434001354 G2 box; other site 455434001355 G3 box; other site 455434001356 Switch II region; other site 455434001357 G4 box; other site 455434001358 G5 box; other site 455434001359 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-...; Region: lepA_II; cd03699 455434001360 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 455434001361 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 455434001362 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 455434001363 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 455434001364 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 455434001365 substrate binding site [chemical binding]; other site 455434001366 dimer interface [polypeptide binding]; other site 455434001367 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...; Region: MECDP_synthase; cd00554 455434001368 homotrimer interaction site [polypeptide binding]; other site 455434001369 zinc binding site [ion binding]; other site 455434001370 CDP-binding sites; other site 455434001371 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 455434001372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455434001373 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; cl09110 455434001374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455434001375 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; cl09110 455434001376 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 455434001377 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 455434001378 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 455434001379 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 455434001380 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 455434001381 Organic solvent tolerance protein; Region: OstA_C; pfam04453 455434001382 integral membrane protein MviN; Region: mviN; TIGR01695 455434001383 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 includes...; Region: RuvC_resolvase; cd00529 455434001384 active site 455434001385 putative DNA-binding cleft [nucleotide binding]; other site 455434001386 dimer interface [polypeptide binding]; other site 455434001387 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 455434001388 Thiamine pyrophosphokinase; Region: TPK; cd07995 455434001389 active site 455434001390 dimerization interface [polypeptide binding]; other site 455434001391 thiamine binding site [chemical binding]; other site 455434001392 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 455434001393 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 455434001394 active site 455434001395 phosphorylation site [posttranslational modification] 455434001396 intermolecular recognition site; other site 455434001397 dimerization interface [polypeptide binding]; other site 455434001398 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...; Region: AAA; cd00009 455434001399 Walker A motif; other site 455434001400 ATP binding site [chemical binding]; other site 455434001401 Walker B motif; other site 455434001402 arginine finger; other site 455434001403 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 455434001404 DNA polymerase III subunit delta'; Validated; Region: PRK07940 455434001405 DNA polymerase III subunit delta'; Validated; Region: PRK09112 455434001406 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 455434001407 Colicin V production protein; Region: Colicin_V; cl00567 455434001408 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...; Region: GT1_MurG; cd03785 455434001409 active site 455434001410 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 455434001411 homodimer interface [polypeptide binding]; other site 455434001412 Found in ATP-dependent protease La (LON); Region: LON; cl01056 455434001413 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 455434001414 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...; Region: AAA; cd00009 455434001415 Walker A motif; other site 455434001416 ATP binding site [chemical binding]; other site 455434001417 Walker B motif; other site 455434001418 arginine finger; other site 455434001419 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 455434001420 elongation factor P; Validated; Region: PRK00529 455434001421 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 455434001422 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 455434001423 RNA binding site [nucleotide binding]; other site 455434001424 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 455434001425 RNA binding site [nucleotide binding]; other site 455434001426 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 455434001427 ATP binding site [chemical binding]; other site 455434001428 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 455434001429 putative Mg++ binding site [ion binding]; other site 455434001430 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; cl14882 455434001431 Helicase associated domain (HA2); Region: HA2; cl04503 455434001432 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 455434001433 ATP synthase subunit D; Region: ATP-synt_D; cl00613 455434001434 V-type ATP synthase subunit B; Provisional; Region: PRK04196 455434001435 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 455434001436 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the...; Region: V_A-ATPase_B; cd01135 455434001437 Walker A motif homologous position; other site 455434001438 Walker B motif; other site 455434001439 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 455434001440 V-type ATP synthase subunit A; Provisional; Region: PRK04192 455434001441 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 455434001442 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 455434001443 Walker A motif/ATP binding site; other site 455434001444 Walker B motif; other site 455434001445 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 455434001446 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 455434001447 Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]; Region: NtpI; COG1269 455434001448 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 455434001449 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 455434001450 substrate binding site [chemical binding]; other site 455434001451 dimer interface [polypeptide binding]; other site 455434001452 catalytic triad [active] 455434001453 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 455434001454 substrate binding site [chemical binding]; other site 455434001455 hinge regions; other site 455434001456 ADP binding site [chemical binding]; other site 455434001457 catalytic site [active] 455434001458 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 455434001459 anti sigma factor interaction site; other site 455434001460 regulatory phosphorylation site [posttranslational modification]; other site 455434001461 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 455434001462 GTPase Era; Reviewed; Region: era; PRK00089 455434001463 G1 box; other site 455434001464 GTP/Mg2+ binding site [chemical binding]; other site 455434001465 Switch I region; other site 455434001466 G2 box; other site 455434001467 Switch II region; other site 455434001468 G3 box; other site 455434001469 G4 box; other site 455434001470 G5 box; other site 455434001471 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include pyrophosphate-dependent...; Region: Pyrophosphate_PFK; cd00765 455434001472 active site 455434001473 pyrophosphate binding site [ion binding]; other site 455434001474 dimerization interface [polypeptide binding]; other site 455434001475 fructose-6-phosphate binding site; other site 455434001476 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 455434001477 RuvA N terminal domain; Region: RuvA_N; pfam01330 455434001478 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 455434001479 generic binding surface I; other site 455434001480 generic binding surface II; other site 455434001481 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 455434001482 putative active site [active] 455434001483 putative catalytic site [active] 455434001484 putative Mg binding site IVb [ion binding]; other site 455434001485 putative phosphate binding site [ion binding]; other site 455434001486 putative DNA binding site [nucleotide binding]; other site 455434001487 putative Mg binding site IVa [ion binding]; other site 455434001488 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 455434001489 ligand binding site [chemical binding]; other site 455434001490 calcium binding site [ion binding]; other site 455434001491 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 455434001492 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 C-...; Region: PDZ_serine_protease; cd00987 455434001493 protein binding site [polypeptide binding]; other site 455434001494 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 455434001495 LytB protein; Region: LYTB; cl00507 455434001496 Uncharacterised protein family (UPF0164); Region: UPF0164; pfam03687 455434001497 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 455434001498 Clp amino terminal domain; Region: Clp_N; pfam02861 455434001499 Clp amino terminal domain; Region: Clp_N; pfam02861 455434001500 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...; Region: AAA; cd00009 455434001501 Walker A motif; other site 455434001502 ATP binding site [chemical binding]; other site 455434001503 Walker B motif; other site 455434001504 arginine finger; other site 455434001505 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...; Region: AAA; cd00009 455434001506 Walker A motif; other site 455434001507 ATP binding site [chemical binding]; other site 455434001508 Walker B motif; other site 455434001509 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 455434001510 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 455434001511 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 455434001512 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 455434001513 G1 box; other site 455434001514 GTP/Mg2+ binding site [chemical binding]; other site 455434001515 Switch I region; other site 455434001516 G2 box; other site 455434001517 Switch II region; other site 455434001518 G3 box; other site 455434001519 G4 box; other site 455434001520 G5 box; other site 455434001521 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 455434001522 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 455434001523 active site 455434001524 Domain of unknown function DUF20; Region: UPF0118; cl00465 455434001525 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 455434001526 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 455434001527 motif II; other site 455434001528 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 455434001529 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 455434001530 dimer interface [polypeptide binding]; other site 455434001531 active site 455434001532 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 455434001533 High-affinity nickel-transport protein; Region: NicO; cl00964 455434001534 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 455434001535 THUMP domain; Region: THUMP; cl12076 455434001536 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 455434001537 Ligand Binding Site [chemical binding]; other site 455434001538 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 455434001539 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 455434001540 TPP-binding site [chemical binding]; other site 455434001541 dimer interface [polypeptide binding]; other site 455434001542 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 455434001543 PYR/PP interface [polypeptide binding]; other site 455434001544 dimer interface [polypeptide binding]; other site 455434001545 TPP binding site [chemical binding]; other site 455434001546 Domain of unknown function (DUF477); Region: DUF477; cl01535 455434001547 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 455434001548 NeuB family; Region: NeuB; cl00496 455434001549 SAF domain; Region: SAF; cl00555 455434001550 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...; Region: DnaJ; cl02542 455434001551 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 455434001552 active site 455434001553 catalytic triad [active] 455434001554 oxyanion hole [active] 455434001555 MBOAT family; Region: MBOAT; cl00738 455434001556 MgtE intracellular N domain; Region: MgtE_N; cl15244 455434001557 Entner-Doudoroff aldolase; Region: eda; TIGR01182 455434001558 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 455434001559 active site 455434001560 intersubunit interface [polypeptide binding]; other site 455434001561 catalytic residue [active] 455434001562 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 455434001563 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 455434001564 active site 455434001565 Domain of unknown function (DUF477); Region: DUF477; cl01535 455434001566 LemA family; Region: LemA; cl00742 455434001567 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 455434001568 FMN-binding domain; Region: FMN_bind; cl01081 455434001569 peptide chain release factor 2; Validated; Region: prfB; PRK00578 455434001570 RF-1 domain; Region: RF-1; cl02875 455434001571 RF-1 domain; Region: RF-1; cl02875 455434001572 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 455434001573 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 455434001574 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 455434001575 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 455434001576 FtsX-like permease family; Region: FtsX; pfam02687 455434001577 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 455434001578 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 455434001579 Walker A/P-loop; other site 455434001580 ATP binding site [chemical binding]; other site 455434001581 Q-loop/lid; other site 455434001582 ABC transporter signature motif; other site 455434001583 Walker B; other site 455434001584 D-loop; other site 455434001585 H-loop/switch region; other site 455434001586 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 455434001587 FtsX-like permease family; Region: FtsX; pfam02687 455434001588 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 455434001589 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 455434001590 peptide binding site [polypeptide binding]; other site 455434001591 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 455434001592 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 455434001593 HIGH motif; other site 455434001594 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 455434001595 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 455434001596 active site 455434001597 KMSKS motif; other site 455434001598 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 455434001599 tRNA binding surface [nucleotide binding]; other site 455434001600 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 455434001601 DNA polymerase III subunit delta; Validated; Region: PRK07452 455434001602 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 455434001603 dimerization domain swap beta strand [polypeptide binding]; other site 455434001604 regulatory protein interface [polypeptide binding]; other site 455434001605 active site 455434001606 regulatory phosphorylation site [posttranslational modification]; other site 455434001607 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 455434001608 DRTGG domain; Region: DRTGG; cl12147 455434001609 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-...; Region: HprK_C; cd01918 455434001610 Hpr binding site; other site 455434001611 active site 455434001612 homohexamer subunit interaction site [polypeptide binding]; other site 455434001613 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 455434001614 adenylate kinases; Region: adk; TIGR01351 455434001615 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 455434001616 AMP-binding site [chemical binding]; other site 455434001617 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 455434001618 poly(A) polymerase; Region: pcnB; TIGR01942 455434001619 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 455434001620 active site 455434001621 NTP binding site [chemical binding]; other site 455434001622 metal binding triad [ion binding]; metal-binding site 455434001623 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 455434001624 RIP metalloprotease RseP; Region: TIGR00054 455434001625 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 455434001626 active site 455434001627 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...; Region: PDZ_metalloprotease; cd00989 455434001628 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...; Region: PDZ_metalloprotease; cd00989 455434001629 protein binding site [polypeptide binding]; other site 455434001630 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 455434001631 putative substrate binding region [chemical binding]; other site 455434001632 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 455434001633 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 455434001634 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 455434001635 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 455434001636 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 455434001637 catalytic residue [active] 455434001638 putative FPP diphosphate binding site; other site 455434001639 putative FPP binding hydrophobic cleft; other site 455434001640 dimer interface [polypeptide binding]; other site 455434001641 putative IPP diphosphate binding site; other site 455434001642 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 round of...; Region: RRF; cd00520 455434001643 hinge region; other site 455434001644 Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]; Region: Tsf; COG0264 455434001645 Elongation factor TS; Region: EF_TS; pfam00889 455434001646 Elongation factor TS; Region: EF_TS; pfam00889 455434001647 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 455434001648 rRNA interaction site [nucleotide binding]; other site 455434001649 S8 interaction site; other site 455434001650 putative laminin-1 binding site; other site 455434001651 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 455434001652 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (...; Region: EcAsnRS_like_N; cd04318 455434001653 putative dimer interface [polypeptide binding]; other site 455434001654 putative anticodon binding site; other site 455434001655 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well...; Region: AsxRS_core; cd00776 455434001656 homodimer interface [polypeptide binding]; other site 455434001657 motif 1; other site 455434001658 motif 2; other site 455434001659 active site 455434001660 motif 3; other site 455434001661 Major Outer Sheath Protein N-terminal region; Region: MOSP_N; pfam02707 455434001662 Major Outer Sheath Protein C-terminal region; Region: MOSP_C; pfam02722 455434001663 FeS assembly ATPase SufC; Region: sufC; TIGR01978 455434001664 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 455434001665 Walker A/P-loop; other site 455434001666 ATP binding site [chemical binding]; other site 455434001667 Q-loop/lid; other site 455434001668 ABC transporter signature motif; other site 455434001669 Walker B; other site 455434001670 D-loop; other site 455434001671 H-loop/switch region; other site 455434001672 FeS assembly protein SufB; Region: sufB; TIGR01980 455434001673 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 455434001674 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 455434001675 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 455434001676 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 455434001677 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455434001678 catalytic residue [active] 455434001679 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 455434001680 trimerization site [polypeptide binding]; other site 455434001681 active site 455434001682 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 455434001683 tetramer (dimer of dimers) interface [polypeptide binding]; other site 455434001684 active site 455434001685 dimer interface [polypeptide binding]; other site 455434001686 Protein of unknown function (DUF2715); Region: DUF2715; pfam10895 455434001687 Protein of unknown function (DUF2715); Region: DUF2715; pfam10895 455434001688 Protein of unknown function (DUF2715); Region: DUF2715; pfam10895 455434001689 Major Outer Sheath Protein N-terminal region; Region: MOSP_N; pfam02707 455434001690 Major Outer Sheath Protein C-terminal region; Region: MOSP_C; pfam02722 455434001691 Major Outer Sheath Protein N-terminal region; Region: MOSP_N; pfam02707 455434001692 Major Outer Sheath Protein C-terminal region; Region: MOSP_C; pfam02722 455434001693 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455434001694 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 455434001695 TPR motif; other site 455434001696 binding surface 455434001697 tetratricopeptide repeat protein; Provisional; Region: PRK11788 455434001698 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 catalyze...; Region: LT_GEWL; cd00254 455434001699 N-acetyl-D-glucosamine binding site [chemical binding]; other site 455434001700 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 455434001701 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455434001702 putative peptidoglycan binding site; other site 455434001703 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455434001704 putative peptidoglycan binding site; other site 455434001705 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 455434001706 ligand binding site [chemical binding]; other site 455434001707 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 455434001708 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 455434001709 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 455434001710 active site 455434001711 metal binding site [ion binding]; metal-binding site 455434001712 DNA binding site [nucleotide binding] 455434001713 exonuclease SbcC; Region: sbcc; TIGR00618 455434001714 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 455434001715 Walker A/P-loop; other site 455434001716 ATP binding site [chemical binding]; other site 455434001717 Q-loop/lid; other site 455434001718 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 455434001719 ABC transporter signature motif; other site 455434001720 Walker B; other site 455434001721 D-loop; other site 455434001722 H-loop/switch region; other site 455434001723 putative nicotinate phosphoribosyltransferase; Region: NAPRTase_put; TIGR01513 455434001724 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting...; Region: NAPRTase_A; cd01570 455434001725 active site 455434001726 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 455434001727 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; cl12011 455434001728 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 455434001729 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 455434001730 active site 455434001731 phosphorylation site [posttranslational modification] 455434001732 intermolecular recognition site; other site 455434001733 dimerization interface [polypeptide binding]; other site 455434001734 CheB methylesterase; Region: CheB_methylest; pfam01339 455434001735 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 455434001736 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 455434001737 active site 455434001738 HIGH motif; other site 455434001739 dimer interface [polypeptide binding]; other site 455434001740 KMSKS motif; other site 455434001741 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 455434001742 SelR domain; Region: SelR; cl00369 455434001743 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 455434001744 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 455434001745 DNA ligase, NAD-dependent; Region: dnlj; TIGR00575 455434001746 nucleotide binding pocket [chemical binding]; other site 455434001747 K-X-D-G motif; other site 455434001748 catalytic site [active] 455434001749 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 455434001750 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; cl00038 455434001751 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 455434001752 Dimer interface [polypeptide binding]; other site 455434001753 BRCT sequence motif; other site 455434001754 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 455434001755 Dimer interface [polypeptide binding]; other site 455434001756 BRCT sequence motif; other site 455434001757 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 455434001758 Recombination protein O C terminal; Region: RecO_C; pfam02565 455434001759 IPP transferase; Region: IPPT; cl00403 455434001760 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 455434001761 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 455434001762 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 455434001763 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 455434001764 histidyl-tRNA synthetase; Region: hisS; TIGR00442 455434001765 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 ATP-dependent...; Region: HisRS-like_core; cd00773 455434001766 dimer interface [polypeptide binding]; other site 455434001767 motif 1; other site 455434001768 active site 455434001769 motif 2; other site 455434001770 motif 3; other site 455434001771 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 455434001772 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and deoxyribose-1-...; Region: PGM2; cd05799 455434001773 active site 455434001774 substrate binding site [chemical binding]; other site 455434001775 metal binding site [ion binding]; metal-binding site 455434001776 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 455434001777 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 455434001778 active site 455434001779 substrate binding site [chemical binding]; other site 455434001780 catalytic site [active] 455434001781 Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]; Region: LysS; COG1384 455434001782 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 455434001783 active site 455434001784 HIGH motif; other site 455434001785 KMSKS motif; other site 455434001786 seryl-tRNA synthetase; Provisional; Region: PRK05431 455434001787 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 455434001788 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 455434001789 dimer interface [polypeptide binding]; other site 455434001790 active site 455434001791 motif 1; other site 455434001792 motif 2; other site 455434001793 motif 3; other site 455434001794 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 455434001795 binding surface 455434001796 TPR motif; other site 455434001797 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 455434001798 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 455434001799 binding surface 455434001800 TPR motif; other site 455434001801 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 455434001802 TPR motif; other site 455434001803 binding surface 455434001804 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 455434001805 Transporter associated domain; Region: CorC_HlyC; pfam03471 455434001806 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 455434001807 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 455434001808 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 455434001809 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 455434001810 Zn2+ binding site [ion binding]; other site 455434001811 Mg2+ binding site [ion binding]; other site 455434001812 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 455434001813 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues...; Region: ABC_PotA_N; cd03300 455434001814 Walker A/P-loop; other site 455434001815 ATP binding site [chemical binding]; other site 455434001816 Q-loop/lid; other site 455434001817 ABC transporter signature motif; other site 455434001818 Walker B; other site 455434001819 D-loop; other site 455434001820 H-loop/switch region; other site 455434001821 TOBE domain; Region: TOBE_2; cl01440 455434001822 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 455434001823 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...; Region: TM_PBP2; cd06261 455434001824 dimer interface [polypeptide binding]; other site 455434001825 conserved gate region; other site 455434001826 putative PBP binding loops; other site 455434001827 ABC-ATPase subunit interface; other site 455434001828 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...; Region: TM_PBP2; cd06261 455434001829 dimer interface [polypeptide binding]; other site 455434001830 conserved gate region; other site 455434001831 putative PBP binding loops; other site 455434001832 ABC-ATPase subunit interface; other site 455434001833 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 455434001834 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 455434001835 Global regulator protein family; Region: CsrA; cl00670 455434001836 FliW protein; Region: FliW; cl00740 455434001837 flagellar hook-associated protein FlgL; Validated; Region: PRK06663 455434001838 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 455434001839 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06665 455434001840 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 455434001841 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 455434001842 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...; Region: TBP_aldolase_IIB; cd00947 455434001843 hypothetical protein; Provisional; Region: PRK08185 455434001844 intersubunit interface [polypeptide binding]; other site 455434001845 active site 455434001846 zinc binding site [ion binding]; other site 455434001847 Na+ binding site [ion binding]; other site 455434001848 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 455434001849 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 455434001850 Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ThrS; COG0441 455434001851 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 455434001852 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 455434001853 Active site [active] 455434001854 YGGT family; Region: YGGT; cl00508 455434001855 DNA-directed DNA polymerase III (polc); Region: polc; TIGR00594 455434001856 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 455434001857 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 455434001858 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...; Region: DnaE_OBF; cd04485 455434001859 generic binding surface II; other site 455434001860 generic binding surface I; other site 455434001861 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 455434001862 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 455434001863 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 455434001864 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 455434001865 glycyl-tRNA synthetase; Provisional; Region: PRK04173 455434001866 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the...; Region: GlyRS-like_core; cd00774 455434001867 dimer interface [polypeptide binding]; other site 455434001868 motif 1; other site 455434001869 active site 455434001870 motif 2; other site 455434001871 motif 3; other site 455434001872 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 455434001873 anticodon binding site; other site 455434001874 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 455434001875 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 455434001876 active site 455434001877 HIGH motif; other site 455434001878 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; cl00338 455434001879 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 455434001880 active site 455434001881 KMSKS motif; other site 455434001882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 455434001883 Smr domain; Region: Smr; cl02619 455434001884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 455434001885 TraB family; Region: TraB; cl12050 455434001886 UGMP family protein; Validated; Region: PRK09604 455434001887 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 455434001888 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 455434001889 alanine racemase; Reviewed; Region: alr; PRK00053 455434001890 active site 455434001891 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 455434001892 dimer interface [polypeptide binding]; other site 455434001893 substrate binding site [chemical binding]; other site 455434001894 catalytic residues [active] 455434001895 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; cl12011 455434001896 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 455434001897 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 455434001898 substrate binding pocket [chemical binding]; other site 455434001899 chain length determination region; other site 455434001900 substrate-Mg2+ binding site; other site 455434001901 catalytic residues [active] 455434001902 aspartate-rich region 1; other site 455434001903 active site lid residues [active] 455434001904 aspartate-rich region 2; other site 455434001905 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 455434001906 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 455434001907 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 455434001908 Walker A/P-loop; other site 455434001909 ATP binding site [chemical binding]; other site 455434001910 Q-loop/lid; other site 455434001911 ABC transporter signature motif; other site 455434001912 Walker B; other site 455434001913 D-loop; other site 455434001914 H-loop/switch region; other site 455434001915 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 455434001916 Alpha helical coiled-coil rod protein (HCR); Region: HCR; pfam07111 455434001917 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 455434001918 TM-ABC transporter signature motif; other site 455434001919 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 455434001920 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 four-...; Region: RecG_wedge_OBF; cd04488 455434001921 generic binding surface II; other site 455434001922 ssDNA binding site; other site 455434001923 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 455434001924 ATP binding site [chemical binding]; other site 455434001925 putative Mg++ binding site [ion binding]; other site 455434001926 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 455434001927 nucleotide binding region [chemical binding]; other site 455434001928 ATP-binding site [chemical binding]; other site 455434001929 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 455434001930 putative dimer interface [polypeptide binding]; other site 455434001931 catalytic triad [active] 455434001932 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 455434001933 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 455434001934 G1 box; other site 455434001935 GTP/Mg2+ binding site [chemical binding]; other site 455434001936 Switch I region; other site 455434001937 G2 box; other site 455434001938 Switch II region; other site 455434001939 G3 box; other site 455434001940 G4 box; other site 455434001941 G5 box; other site 455434001942 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 455434001943 G1 box; other site 455434001944 GTP/Mg2+ binding site [chemical binding]; other site 455434001945 Switch I region; other site 455434001946 G2 box; other site 455434001947 G3 box; other site 455434001948 Switch II region; other site 455434001949 G4 box; other site 455434001950 G5 box; other site 455434001951 ScpA/B protein; Region: ScpA_ScpB; cl00598 455434001952 recombinase A; Provisional; Region: recA; PRK09354 455434001953 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 455434001954 hexamer interface [polypeptide binding]; other site 455434001955 Walker A motif; other site 455434001956 ATP binding site [chemical binding]; other site 455434001957 Walker B motif; other site 455434001958 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 455434001959 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 455434001960 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 455434001961 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 455434001962 catalytic triad [active] 455434001963 conserved cis-peptide bond; other site 455434001964 Protein of unknown function (DUF2715); Region: DUF2715; pfam10895 455434001965 Protein of unknown function (DUF2715); Region: DUF2715; pfam10895 455434001966 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 455434001967 Peptidase family M23; Region: Peptidase_M23; pfam01551 455434001968 DHH family; Region: DHH; pfam01368 455434001969 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 455434001970 DHHA1 domain; Region: DHHA1; pfam02272 455434001971 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 455434001972 Transglycosylase; Region: Transgly; cl07896 455434001973 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 455434001974 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 455434001975 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 455434001976 Peptidase family M23; Region: Peptidase_M23; pfam01551 455434001977 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 455434001978 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455434001979 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 455434001980 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...; Region: Sigma70_r4; cd06171 455434001981 DNA binding residues [nucleotide binding] 455434001982 Uncharacterized conserved protein [Function unknown]; Region: COG1315 455434001983 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 455434001984 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 455434001985 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 455434001986 Flagellar GTP-binding protein [Cell motility and secretion]; Region: FlhF; COG1419 455434001987 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 455434001988 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 455434001989 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 455434001990 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 455434001991 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 455434001992 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 455434001993 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 455434001994 FliP family; Region: FliP; cl00593 455434001995 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 455434001996 flagellar motor switch protein; Validated; Region: PRK08119 455434001997 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 455434001998 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 455434001999 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 455434002000 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 455434002001 flagellar motor protein MotB; Validated; Region: motB; PRK06667 455434002002 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 455434002003 ligand binding site [chemical binding]; other site 455434002004 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 455434002005 Flagellar protein (FlbD); Region: FlbD; cl00683 455434002006 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 455434002007 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 455434002008 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 455434002009 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 455434002010 Flagellar hook capping protein; Region: FlgD; cl04347 455434002011 Flagellar hook-length control protein FliK; Region: Flg_hook; cl14669 455434002012 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 455434002013 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as...; Region: ADPRase_NUDT5; cd03424 455434002014 dimer interface [polypeptide binding]; other site 455434002015 ADP-ribose binding site [chemical binding]; other site 455434002016 active site 455434002017 nudix motif; other site 455434002018 metal binding site [ion binding]; metal-binding site 455434002019 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 455434002020 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 455434002021 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 455434002022 homodimer interface [polypeptide binding]; other site 455434002023 NADP binding site [chemical binding]; other site 455434002024 substrate binding site [chemical binding]; other site 455434002025 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 455434002026 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 455434002027 glutamate synthase (NADPH), homotetrameric; Region: gltA; TIGR01316 455434002028 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 455434002029 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 455434002030 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-...; Region: DHOD_e_trans_like1; cd06219 455434002031 FAD binding pocket [chemical binding]; other site 455434002032 FAD binding motif [chemical binding]; other site 455434002033 phosphate binding motif [ion binding]; other site 455434002034 beta-alpha-beta structure motif; other site 455434002035 NAD binding pocket [chemical binding]; other site 455434002036 Iron coordination center [ion binding]; other site 455434002037 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 455434002038 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 455434002039 Domain of unknown function DUF143; Region: DUF143; cl00519 455434002040 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 455434002041 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 455434002042 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 455434002043 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 455434002044 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 455434002045 active site 455434002046 (T/H)XGH motif; other site 455434002047 GTPase CgtA; Reviewed; Region: obgE; PRK12298 455434002048 GTP1/OBG; Region: GTP1_OBG; pfam01018 455434002049 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 455434002050 G1 box; other site 455434002051 GTP/Mg2+ binding site [chemical binding]; other site 455434002052 Switch I region; other site 455434002053 G2 box; other site 455434002054 G3 box; other site 455434002055 Switch II region; other site 455434002056 G4 box; other site 455434002057 G5 box; other site 455434002058 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 455434002059 Protein of unknown function (DUF464); Region: DUF464; cl01080 455434002060 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 455434002061 pyruvate phosphate dikinase; Provisional; Region: PRK09279 455434002062 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 455434002063 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 455434002064 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; cl09155 455434002065 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 455434002066 metal ion-dependent adhesion site (MIDAS); other site 455434002067 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14335 455434002068 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 455434002069 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 455434002070 FeS/SAM binding site; other site 455434002071 TRAM domain; Region: TRAM; cl01282 455434002072 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 455434002073 active site 455434002074 phosphorylation site [posttranslational modification] 455434002075 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 455434002076 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 455434002077 putative active site [active] 455434002078 substrate binding site [chemical binding]; other site 455434002079 putative cosubstrate binding site; other site 455434002080 catalytic site [active] 455434002081 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 455434002082 substrate binding site [chemical binding]; other site 455434002083 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(...; Region: Pep_deformylase; cd00487 455434002084 active site 455434002085 catalytic residues [active] 455434002086 metal binding site [ion binding]; metal-binding site 455434002087 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 455434002088 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 455434002089 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 455434002090 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 455434002091 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 455434002092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 455434002093 Thiamine pyrophosphokinase; Region: TPK; cl09135 455434002094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 455434002095 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 455434002096 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 455434002097 Zn2+ binding site [ion binding]; other site 455434002098 Mg2+ binding site [ion binding]; other site 455434002099 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 455434002100 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...; Region: AAA; cd00009 455434002101 Walker A motif; other site 455434002102 ATP binding site [chemical binding]; other site 455434002103 Walker B motif; other site 455434002104 arginine finger; other site 455434002105 Peptidase family M41; Region: Peptidase_M41; pfam01434 455434002106 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 455434002107 elongation factor G; Reviewed; Region: PRK12740 455434002108 G1 box; other site 455434002109 putative GEF interaction site [polypeptide binding]; other site 455434002110 GTP/Mg2+ binding site [chemical binding]; other site 455434002111 Switch I region; other site 455434002112 G2 box; other site 455434002113 G3 box; other site 455434002114 Switch II region; other site 455434002115 G4 box; other site 455434002116 G5 box; other site 455434002117 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 455434002118 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...; Region: EFG_mtEFG1_IV; cd01434 455434002119 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to...; Region: Elongation_Factor_C; cl02785 455434002120 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 455434002121 helicase 45; Provisional; Region: PTZ00424 455434002122 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 455434002123 ATP binding site [chemical binding]; other site 455434002124 Mg++ binding site [ion binding]; other site 455434002125 motif III; other site 455434002126 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 455434002127 nucleotide binding region [chemical binding]; other site 455434002128 ATP-binding site [chemical binding]; other site 455434002129 DbpA RNA binding domain; Region: DbpA; pfam03880 455434002130 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 455434002131 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 455434002132 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 455434002133 PhoU domain; Region: PhoU; pfam01895 455434002134 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 455434002135 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 C-...; Region: PDZ_serine_protease; cd00987 455434002136 protein binding site [polypeptide binding]; other site 455434002137 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 455434002138 MgtC family; Region: MgtC; cl12207 455434002139 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 455434002140 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 455434002141 minor groove reading motif; other site 455434002142 helix-hairpin-helix signature motif; other site 455434002143 substrate binding pocket [chemical binding]; other site 455434002144 active site 455434002145 FES domain; Region: FES; smart00525 455434002146 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 455434002147 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 455434002148 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 455434002149 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 455434002150 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 455434002151 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 455434002152 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 455434002153 NAD synthetase; Reviewed; Region: nadE; PRK02628 455434002154 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 455434002155 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...; Region: NAD_synthase; cd00553 455434002156 homodimer interface [polypeptide binding]; other site 455434002157 NAD binding pocket [chemical binding]; other site 455434002158 ATP binding pocket [chemical binding]; other site 455434002159 Mg binding site [ion binding]; other site 455434002160 active-site loop [active] 455434002161 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 455434002162 OstA-like protein; Region: OstA; cl00844 455434002163 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 455434002164 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 455434002165 Walker A/P-loop; other site 455434002166 ATP binding site [chemical binding]; other site 455434002167 Q-loop/lid; other site 455434002168 ABC transporter signature motif; other site 455434002169 Walker B; other site 455434002170 D-loop; other site 455434002171 H-loop/switch region; other site 455434002172 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 455434002173 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 455434002174 flagellin; Provisional; Region: PRK12804 455434002175 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 455434002176 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 455434002177 S-adenosylmethionine synthetase; Validated; Region: PRK05250 455434002178 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 455434002179 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 455434002180 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 455434002181 ApbE family; Region: ApbE; cl00643 455434002182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455434002183 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 455434002184 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 455434002185 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 455434002186 active site 455434002187 HIGH motif; other site 455434002188 KMSKS motif; other site 455434002189 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 455434002190 tRNA binding surface [nucleotide binding]; other site 455434002191 anticodon binding site; other site 455434002192 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human tyrosyl-; Region: tRNA_bindingDomain; cl00320 455434002193 putative tRNA-binding site [nucleotide binding]; other site 455434002194 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 455434002195 Beta-lactamase; Region: Beta-lactamase; cl01009 455434002196 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 455434002197 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...; Region: AAA; cd00009 455434002198 Walker A motif; other site 455434002199 ATP binding site [chemical binding]; other site 455434002200 Walker B motif; other site 455434002201 arginine finger; other site 455434002202 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...; Region: AAA; cd00009 455434002203 Walker A motif; other site 455434002204 ATP binding site [chemical binding]; other site 455434002205 Walker B motif; other site 455434002206 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 455434002207 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 455434002208 DHH family; Region: DHH; pfam01368 455434002209 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 455434002210 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 455434002211 Walker A/P-loop; other site 455434002212 ATP binding site [chemical binding]; other site 455434002213 Q-loop/lid; other site 455434002214 ABC transporter signature motif; other site 455434002215 Walker B; other site 455434002216 D-loop; other site 455434002217 H-loop/switch region; other site 455434002218 Exoribonuclease R [Transcription]; Region: VacB; COG0557 455434002219 RNB domain; Region: RNB; pfam00773 455434002220 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 455434002221 FemAB family; Region: FemAB; cl11444 455434002222 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 455434002223 Phosphopantetheine attachment site; Region: PP-binding; cl09936 455434002224 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 455434002225 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 post-...; Region: RIBOc; cd00593 455434002226 dimerization interface [polypeptide binding]; other site 455434002227 active site 455434002228 metal binding site [ion binding]; metal-binding site 455434002229 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...; Region: DSRM; cd00048 455434002230 dsRNA binding site [nucleotide binding]; other site 455434002231 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 455434002232 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 455434002233 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 455434002234 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 455434002235 Predicted acetyltransferase [General function prediction only]; Region: COG3393 455434002236 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 455434002237 enolase; Provisional; Region: eno; PRK00077 455434002238 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 455434002239 dimer interface [polypeptide binding]; other site 455434002240 metal binding site [ion binding]; metal-binding site 455434002241 substrate binding pocket [chemical binding]; other site 455434002242 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 455434002243 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 455434002244 TPR motif; other site 455434002245 binding surface 455434002246 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 455434002247 TPR motif; other site 455434002248 binding surface 455434002249 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 455434002250 Mechanosensitive ion channel; Region: MS_channel; pfam00924 455434002251 Desulfoferrodoxin [Energy production and conversion]; Region: COG2033 455434002252 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 455434002253 non-heme iron binding site [ion binding]; other site 455434002254 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 455434002255 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 455434002256 TPP-binding site; other site 455434002257 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 455434002258 PYR/PP interface [polypeptide binding]; other site 455434002259 dimer interface [polypeptide binding]; other site 455434002260 TPP binding site [chemical binding]; other site 455434002261 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 455434002262 Uncharacterized conserved protein [Function unknown]; Region: COG1624 455434002263 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 455434002264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 455434002265 YbbR-like protein; Region: YbbR; pfam07949 455434002266 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 455434002267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 455434002268 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 455434002269 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 455434002270 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 455434002271 dimerization interface 3.5A [polypeptide binding]; other site 455434002272 active site 455434002273 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 455434002274 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 455434002275 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 455434002276 active site 455434002277 HIGH motif; other site 455434002278 KMSK motif region; other site 455434002279 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 455434002280 tRNA binding surface [nucleotide binding]; other site 455434002281 anticodon binding site; other site 455434002282 Spore germination protein [General function prediction only]; Region: COG5401 455434002283 Sporulation and spore germination; Region: Germane; pfam10646 455434002284 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 455434002285 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 455434002286 active site 455434002287 HIGH motif; other site 455434002288 dimer interface [polypeptide binding]; other site 455434002289 KMSKS motif; other site 455434002290 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 455434002291 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 455434002292 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 455434002293 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 455434002294 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 455434002295 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 455434002296 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 455434002297 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 455434002298 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 455434002299 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 455434002300 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 455434002301 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 455434002302 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 455434002303 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 455434002304 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 455434002305 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 455434002306 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 455434002307 active site 455434002308 dimer interface [polypeptide binding]; other site 455434002309 motif 1; other site 455434002310 motif 2; other site 455434002311 motif 3; other site 455434002312 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 455434002313 anticodon binding site; other site 455434002314 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 455434002315 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 455434002316 Walker A/P-loop; other site 455434002317 ATP binding site [chemical binding]; other site 455434002318 Q-loop/lid; other site 455434002319 ABC transporter signature motif; other site 455434002320 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 455434002321 Walker B; other site 455434002322 D-loop; other site 455434002323 H-loop/switch region; other site 455434002324 ABC transporter; Region: ABC_tran_2; pfam12848 455434002325 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 455434002326 Major Facilitator Superfamily; Region: MFS_1; pfam07690 455434002327 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 455434002328 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 455434002329 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 455434002330 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 C-...; Region: PDZ_serine_protease; cd00987 455434002331 protein binding site [polypeptide binding]; other site 455434002332 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 C-...; Region: PDZ_serine_protease; cd00987 455434002333 protein binding site [polypeptide binding]; other site 455434002334 methionine aminopeptidase; Reviewed; Region: PRK07281 455434002335 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 455434002336 active site 455434002337 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 455434002338 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...; Region: DnaJ; cd06257 455434002339 HSP70 interaction site [polypeptide binding]; other site 455434002340 cytosolic glyceraldehyde 3-phosphate dehydrogenase; Provisional; Region: PTZ00434 455434002341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455434002342 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 455434002343 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 455434002344 Cell division protein ZapA; Region: ZapA; cl01146 455434002345 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 455434002346 23S rRNA binding site [nucleotide binding]; other site 455434002347 L21 binding site [polypeptide binding]; other site 455434002348 L13 binding site [polypeptide binding]; other site 455434002349 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 455434002350 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 455434002351 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 455434002352 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 455434002353 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 455434002354 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 455434002355 putative trimer interface [polypeptide binding]; other site 455434002356 putative CoA binding site [chemical binding]; other site 455434002357 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 455434002358 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 455434002359 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 455434002360 P-loop; other site 455434002361 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 455434002362 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 connected by an extended linker. The...; Region: HAMP; cl01054 455434002363 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 455434002364 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 455434002365 Uncharacterised protein family (UPF0164); Region: UPF0164; pfam03687 455434002366 Uncharacterised protein family (UPF0164); Region: UPF0164; pfam03687 455434002367 Uncharacterised protein family (UPF0164); Region: UPF0164; pfam03687 455434002368 Uncharacterised protein family (UPF0164); Region: UPF0164; pfam03687 455434002369 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 455434002370 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...; Region: GFAT; cd00714 455434002371 glutaminase active site [active] 455434002372 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 455434002373 dimer interface [polypeptide binding]; other site 455434002374 active site 455434002375 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 455434002376 dimer interface [polypeptide binding]; other site 455434002377 active site 455434002378 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 455434002379 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 455434002380 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 455434002381 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 455434002382 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 455434002383 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 455434002384 catalytic residue [active] 455434002385 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 455434002386 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455434002387 putative peptidoglycan binding site; other site 455434002388 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 455434002389 putative peptidoglycan binding site; other site 455434002390 Peptidase family M23; Region: Peptidase_M23; pfam01551 455434002391 Uncharacterised protein family (UPF0164); Region: UPF0164; pfam03687 455434002392 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 455434002393 flagellin; Provisional; Region: PRK12804 455434002394 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 455434002395 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 455434002396 flagellar hook-associated protein FliD; Validated; Region: fliD; PRK06664 455434002397 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 455434002398 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 455434002399 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 455434002400 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 455434002401 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 455434002402 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 455434002403 Zn2+ binding site [ion binding]; other site 455434002404 Mg2+ binding site [ion binding]; other site 455434002405 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 455434002406 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 455434002407 ABC-2 type transporter; Region: ABC2_membrane; cl11417 455434002408 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 455434002409 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 455434002410 Walker A/P-loop; other site 455434002411 ATP binding site [chemical binding]; other site 455434002412 Q-loop/lid; other site 455434002413 ABC transporter signature motif; other site 455434002414 Walker B; other site 455434002415 D-loop; other site 455434002416 H-loop/switch region; other site 455434002417 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 455434002418 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 455434002419 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 455434002420 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 455434002421 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 455434002422 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 455434002423 trimer interface [polypeptide binding]; other site 455434002424 active site 455434002425 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 455434002426 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 455434002427 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 455434002428 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 455434002429 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 455434002430 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 455434002431 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 455434002432 putative nucleic acid binding region [nucleotide binding]; other site 455434002433 G-X-X-G motif; other site 455434002434 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 455434002435 RNA binding site [nucleotide binding]; other site 455434002436 domain interface; other site 455434002437 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...; Region: Ribosomal_S15p_S13e; cd00353 455434002438 16S/18S rRNA binding site [nucleotide binding]; other site 455434002439 S13e-L30e interaction site [polypeptide binding]; other site 455434002440 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 455434002441 active site 455434002442 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 455434002443 RNA binding site [nucleotide binding]; other site 455434002444 active site 455434002445 Ribosome-binding factor A; Region: RBFA; cl00542 455434002446 translation initiation factor IF-2; Region: IF-2; TIGR00487 455434002447 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 455434002448 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 455434002449 G1 box; other site 455434002450 putative GEF interaction site [polypeptide binding]; other site 455434002451 GTP/Mg2+ binding site [chemical binding]; other site 455434002452 Switch I region; other site 455434002453 G2 box; other site 455434002454 G3 box; other site 455434002455 Switch II region; other site 455434002456 G4 box; other site 455434002457 G5 box; other site 455434002458 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...; Region: IF2_mtIF2_II; cd03702 455434002459 Translation-initiation factor 2; Region: IF-2; pfam11987 455434002460 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...; Region: mtIF2_IVc; cd03692 455434002461 transcription termination factor NusA; Region: NusA; TIGR01953 455434002462 NusA N-terminal domain; Region: NusA_N; pfam08529 455434002463 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...; Region: S1_NusA; cd04455 455434002464 RNA binding site [nucleotide binding]; other site 455434002465 homodimer interface [polypeptide binding]; other site 455434002466 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 455434002467 G-X-X-G motif; other site 455434002468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 455434002469 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 455434002470 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 455434002471 Sm1 motif; other site 455434002472 D3 - B interaction site; other site 455434002473 D1 - D2 interaction site; other site 455434002474 Hfq - Hfq interaction site; other site 455434002475 RNA binding pocket [nucleotide binding]; other site 455434002476 Sm2 motif; other site 455434002477 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 455434002478 putative metal binding site [ion binding]; other site 455434002479 LOTUS is an uncharacterized small globular domain found in Limkain b1, Oskar and Tudor-containing proteins 5 and 7; Region: LOTUS; cl14879 455434002480 Uncharacterized conserved protein [Function unknown]; Region: COG1432 455434002481 Domain of unknown function DUF302; Region: DUF302; cl01364 455434002482 Major Outer Sheath Protein N-terminal region; Region: MOSP_N; pfam02707 455434002483 Major Outer Sheath Protein C-terminal region; Region: MOSP_C; pfam02722 455434002484 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 455434002485 UvrD/REP helicase; Region: UvrD-helicase; cl14126 455434002486 UvrD/REP helicase; Region: UvrD-helicase; cl14126 455434002487 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 455434002488 probable DNA repair protein; Region: TIGR03623 455434002489 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 455434002490 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 455434002491 MatE; Region: MatE; pfam01554 455434002492 MatE; Region: MatE; pfam01554 455434002493 Esterase/lipase [General function prediction only]; Region: COG1647 455434002494 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 455434002495 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 455434002496 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 455434002497 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 455434002498 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 455434002499 RimM N-terminal domain; Region: RimM; pfam01782 455434002500 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 455434002501 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 455434002502 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 455434002503 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 455434002504 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 455434002505 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 455434002506 Zn2+ binding site [ion binding]; other site 455434002507 Mg2+ binding site [ion binding]; other site 455434002508 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 455434002509 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 455434002510 TPR motif; other site 455434002511 binding surface 455434002512 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 455434002513 binding surface 455434002514 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 455434002515 TPR motif; other site 455434002516 Restriction endonuclease; Region: Mrr_cat; cl00747 455434002517 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 455434002518 MgtE intracellular N domain; Region: MgtE_N; cl15244 455434002519 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 455434002520 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-...; Region: CBS_pair; cd02205 455434002521 Divalent cation transporter; Region: MgtE; cl00786 455434002522 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 455434002523 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 455434002524 catalytic residues [active] 455434002525 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455434002526 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 455434002527 binding surface 455434002528 TPR motif; other site 455434002529 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 455434002530 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 455434002531 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 455434002532 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 455434002533 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 455434002534 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 455434002535 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 455434002536 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 455434002537 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 455434002538 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 455434002539 Catalytic site [active] 455434002540 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 455434002541 Thiamine pyrophosphokinase; Region: TPK; cl09135 455434002542 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 455434002543 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 455434002544 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 455434002545 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 455434002546 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 455434002547 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 455434002548 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 455434002549 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 455434002550 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 455434002551 Transporter associated domain; Region: CorC_HlyC; pfam03471 455434002552 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 455434002553 active site 455434002554 metal binding site [ion binding]; metal-binding site 455434002555 homotetramer interface [polypeptide binding]; other site 455434002556 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 455434002557 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 455434002558 dimer interface [polypeptide binding]; other site 455434002559 PYR/PP interface [polypeptide binding]; other site 455434002560 TPP binding site [chemical binding]; other site 455434002561 substrate binding site [chemical binding]; other site 455434002562 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 455434002563 Domain of unknown function; Region: EKR; pfam10371 455434002564 4Fe-4S binding domain; Region: Fer4; cl02805 455434002565 4Fe-4S binding domain; Region: Fer4; cl02805 455434002566 TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This subfamily also includes proteins characterized as...; Region: TPP_PFOR_PNO; cd03377 455434002567 TPP-binding site [chemical binding]; other site 455434002568 dimer interface [polypeptide binding]; other site 455434002569 Flagellar protein FliS; Region: FliS; cl00654 455434002570 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455434002571 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 455434002572 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...; Region: RPE; cd00429 455434002573 substrate binding site [chemical binding]; other site 455434002574 hexamer interface [polypeptide binding]; other site 455434002575 metal binding site [ion binding]; metal-binding site 455434002576 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 455434002577 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 455434002578 S-adenosylmethionine binding site [chemical binding]; other site 455434002579 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 455434002580 active site 455434002581 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 455434002582 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 455434002583 G-X-X-G motif; other site 455434002584 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 455434002585 RxxxH motif; other site 455434002586 membrane protein insertase; Provisional; Region: PRK01318 455434002587 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 455434002588 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 455434002589 Chlorophyllase enzyme; Region: Chlorophyllase2; cl14889 455434002590 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 455434002591 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 455434002592 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 455434002593 TraB family; Region: TraB; cl12050 455434002594 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 455434002595 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 455434002596 binding surface 455434002597 TPR motif; other site 455434002598 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 455434002599 binding surface 455434002600 TPR motif; other site 455434002601 Predicted integral membrane protein [Function unknown]; Region: COG5660 455434002602 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 455434002603 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 455434002604 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; cl09110 455434002605 Rod binding protein; Region: Rod-binding; cl01626 455434002606 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12816 455434002607 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 455434002608 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 455434002609 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 455434002610 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 455434002611 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 455434002612 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 455434002613 FtsX-like permease family; Region: FtsX; pfam02687 455434002614 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 455434002615 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 455434002616 FtsX-like permease family; Region: FtsX; pfam02687 455434002617 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 455434002618 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 455434002619 Walker A/P-loop; other site 455434002620 ATP binding site [chemical binding]; other site 455434002621 Q-loop/lid; other site 455434002622 ABC transporter signature motif; other site 455434002623 Walker B; other site 455434002624 D-loop; other site 455434002625 H-loop/switch region; other site 455434002626 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 455434002627 Outer membrane efflux protein; Region: OEP; pfam02321 455434002628 Fe2+ transport protein; Region: Iron_transport; cl01377 455434002629 Iron permease FTR1 family; Region: FTR1; cl00475 455434002630 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 455434002631 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 455434002632 dimer interface [polypeptide binding]; other site 455434002633 motif 1; other site 455434002634 active site 455434002635 motif 2; other site 455434002636 motif 3; other site 455434002637 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 455434002638 Uncharacterized conserved protein [Function unknown]; Region: COG0327 455434002639 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 455434002640 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 455434002641 lipoprotein signal peptidase; Provisional; Region: PRK14787 455434002642 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 455434002643 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 455434002644 active site 455434002645 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 455434002646 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...; Region: DUS_like_FMN; cd02801 455434002647 FMN binding site [chemical binding]; other site 455434002648 active site 455434002649 catalytic residues [active] 455434002650 substrate binding site [chemical binding]; other site 455434002651 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 455434002652 metal binding site [ion binding]; metal-binding site 455434002653 active site 455434002654 I-site; other site 455434002655 Rhomboid family; Region: Rhomboid; cl11446 455434002656 heat shock protein 90; Provisional; Region: PRK05218 455434002657 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 455434002658 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 455434002659 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 455434002660 dimer interface [polypeptide binding]; other site 455434002661 anticodon binding site; other site 455434002662 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 the...; Region: AspRS_core; cd00777 455434002663 homodimer interface [polypeptide binding]; other site 455434002664 motif 1; other site 455434002665 active site 455434002666 motif 2; other site 455434002667 GAD domain; Region: GAD; pfam02938 455434002668 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 the...; Region: AspRS_core; cd00777 455434002669 motif 3; other site 455434002670 EamA-like transporter family; Region: EamA; cl01037 455434002671 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 455434002672 MarC family integral membrane protein; Region: MarC; cl00919 455434002673 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 455434002674 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 455434002675 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 455434002676 binding surface 455434002677 TPR motif; other site 455434002678 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They...; Region: rubredoxin; cd00730 455434002679 Rubredoxin; Region: Rubredoxin; pfam00301 455434002680 iron binding site [ion binding]; other site 455434002681 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 455434002682 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 455434002683 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 455434002684 active site 455434002685 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 455434002686 ligand binding site [chemical binding]; other site 455434002687 flexible hinge region; other site 455434002688 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 455434002689 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 455434002690 tandem repeat interface [polypeptide binding]; other site 455434002691 oligomer interface [polypeptide binding]; other site 455434002692 active site residues [active] 455434002693 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 455434002694 tandem repeat interface [polypeptide binding]; other site 455434002695 oligomer interface [polypeptide binding]; other site 455434002696 active site residues [active] 455434002697 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 455434002698 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 455434002699 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 455434002700 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 455434002701 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 455434002702 Predicted secreted protein (DUF2259); Region: DUF2259; cl02309 455434002703 recombination protein RecR; Region: recR; TIGR00615 455434002704 RecR protein; Region: RecR; pfam02132 455434002705 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 455434002706 putative active site [active] 455434002707 putative metal-binding site [ion binding]; other site 455434002708 tetramer interface [polypeptide binding]; other site 455434002709 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06647 455434002710 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...; Region: AAA; cd00009 455434002711 Walker A motif; other site 455434002712 ATP binding site [chemical binding]; other site 455434002713 Walker B motif; other site 455434002714 arginine finger; other site 455434002715 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 455434002716 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 455434002717 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 455434002718 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 455434002719 anchoring element; other site 455434002720 dimer interface [polypeptide binding]; other site 455434002721 ATP binding site [chemical binding]; other site 455434002722 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 455434002723 active site 455434002724 metal binding site [ion binding]; metal-binding site 455434002725 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 455434002726 Thymidylate synthase complementing protein; Region: Thy1; cl03630 455434002727 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12364 455434002728 ATP cone domain; Region: ATP-cone; pfam03477 455434002729 Class I ribonucleotide reductase; Region: RNR_I; cd01679 455434002730 active site 455434002731 dimer interface [polypeptide binding]; other site 455434002732 catalytic residues [active] 455434002733 effector binding site; other site 455434002734 R2 peptide binding site; other site 455434002735 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 455434002736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 455434002737 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 455434002738 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 455434002739 active site 455434002740 multimer interface [polypeptide binding]; other site 455434002741 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 455434002742 putative active site [active] 455434002743 catalytic residue [active] 455434002744 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; Region: RpoD; COG0568 455434002745 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 455434002746 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...; Region: Sigma70_r4; cd06171 455434002747 DNA binding residues [nucleotide binding] 455434002748 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...; Region: cpn10; cd00320 455434002749 oligomerisation interface [polypeptide binding]; other site 455434002750 mobile loop; other site 455434002751 roof hairpin; other site 455434002752 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 455434002753 putative RNA binding site [nucleotide binding]; other site 455434002754 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 455434002755 SurA N-terminal domain; Region: SurA_N; pfam09312 455434002756 alanyl-tRNA synthetase; Provisional; Region: PRK01584 455434002757 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 formation...; Region: AlaRS_core; cd00673 455434002758 motif 1; other site 455434002759 active site 455434002760 motif 2; other site 455434002761 motif 3; other site 455434002762 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 455434002763 conserved hypothetical protein YmdA/YtgF; Region: YmdA_YtgF; TIGR03319 455434002764 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 455434002765 Zn2+ binding site [ion binding]; other site 455434002766 Mg2+ binding site [ion binding]; other site 455434002767 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 455434002768 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 455434002769 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; cl11426 455434002770 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 455434002771 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 455434002772 GatB domain; Region: GatB_Yqey; cl11497 455434002773 DNA repair protein RadA; Provisional; Region: PRK11823 455434002774 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 455434002775 Walker A motif/ATP binding site; other site 455434002776 ATP binding site [chemical binding]; other site 455434002777 Walker B motif; other site 455434002778 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 455434002779 RecX family; Region: RecX; cl00936 455434002780 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 455434002781 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 455434002782 23S rRNA interface [nucleotide binding]; other site 455434002783 L3 interface [polypeptide binding]; other site 455434002784 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 455434002785 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 455434002786 active site 455434002787 Zn binding site [ion binding]; other site 455434002788 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 455434002789 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 455434002790 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 455434002791 UvrD/REP helicase; Region: UvrD-helicase; cl14126 455434002792 DbpA RNA binding domain; Region: DbpA; pfam03880 455434002793 Major Outer Sheath Protein N-terminal region; Region: MOSP_N; pfam02707 455434002794 Major Outer Sheath Protein C-terminal region; Region: MOSP_C; pfam02722 455434002795 NGN-insert domain found between N-terminal domain (D1) and C-terminal KOW domain (DIII) repeats of some N-Utilization Substance G (NusG) N-terminal (NGN); Region: NGN-insert_like; cd09910 455434002796 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 455434002797 active site 455434002798 nucleophile elbow; other site 455434002799 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 455434002800 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 455434002801 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 455434002802 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 455434002803 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 455434002804 active site 455434002805 HIGH motif; other site 455434002806 nucleotide binding site [chemical binding]; other site 455434002807 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 455434002808 active site 455434002809 KMSKS motif; other site 455434002810 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 455434002811 tRNA binding surface [nucleotide binding]; other site 455434002812 anticodon binding site; other site 455434002813 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 455434002814 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 455434002815 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 455434002816 metal-binding site [ion binding] 455434002817 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 455434002818 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; cl11391 455434002819 Haemolysin-III related; Region: HlyIII; cl03831 455434002820 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 455434002821 Ferritin-like domain; Region: Ferritin; pfam00210 455434002822 dimerization interface [polypeptide binding]; other site 455434002823 DPS ferroxidase diiron center [ion binding]; other site 455434002824 ion pore; other site 455434002825 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 455434002826 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 455434002827 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 455434002828 motif 1; other site 455434002829 dimer interface [polypeptide binding]; other site 455434002830 active site 455434002831 motif 2; other site 455434002832 motif 3; other site 455434002833 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 455434002834 oligomer interface [polypeptide binding]; other site 455434002835 active site residues [active]