-- dump date 20140620_083922 -- class Genbank::misc_feature -- table misc_feature_note -- id note 488221000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 488221000002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221000003 Walker A motif; other site 488221000004 ATP binding site [chemical binding]; other site 488221000005 Walker B motif; other site 488221000006 arginine finger; other site 488221000007 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 488221000008 DnaA box-binding interface [nucleotide binding]; other site 488221000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 488221000010 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 488221000011 putative DNA binding surface [nucleotide binding]; other site 488221000012 dimer interface [polypeptide binding]; other site 488221000013 beta-clamp/clamp loader binding surface; other site 488221000014 beta-clamp/translesion DNA polymerase binding surface; other site 488221000015 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 488221000016 GTP-binding protein YchF; Reviewed; Region: PRK09601 488221000017 YchF GTPase; Region: YchF; cd01900 488221000018 G1 box; other site 488221000019 GTP/Mg2+ binding site [chemical binding]; other site 488221000020 Switch I region; other site 488221000021 G2 box; other site 488221000022 Switch II region; other site 488221000023 G3 box; other site 488221000024 G4 box; other site 488221000025 G5 box; other site 488221000026 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 488221000027 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 488221000028 putative active site [active] 488221000029 catalytic residue [active] 488221000030 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 488221000031 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 488221000032 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 488221000033 ATP binding site [chemical binding]; other site 488221000034 putative Mg++ binding site [ion binding]; other site 488221000035 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 488221000036 nucleotide binding region [chemical binding]; other site 488221000037 ATP-binding site [chemical binding]; other site 488221000038 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 488221000039 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 488221000040 RNA binding surface [nucleotide binding]; other site 488221000041 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 488221000042 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 488221000043 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 488221000044 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 488221000045 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 488221000046 Ligand Binding Site [chemical binding]; other site 488221000047 TilS substrate C-terminal domain; Region: TilS_C; smart00977 488221000048 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488221000049 active site 488221000050 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 488221000051 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221000052 Walker A motif; other site 488221000053 ATP binding site [chemical binding]; other site 488221000054 Walker B motif; other site 488221000055 arginine finger; other site 488221000056 Peptidase family M41; Region: Peptidase_M41; pfam01434 488221000057 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221000058 Transposase; Region: DDE_Tnp_ISL3; pfam01610 488221000059 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 488221000060 DDE superfamily endonuclease; Region: DDE_3; pfam13358 488221000061 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221000062 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221000063 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 488221000064 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 488221000065 GDP-binding site [chemical binding]; other site 488221000066 ACT binding site; other site 488221000067 IMP binding site; other site 488221000068 unresolved collapsed tandem duplication of all or portions of this phage region 488221000069 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 488221000070 active site 488221000071 catalytic residues [active] 488221000072 DNA binding site [nucleotide binding] 488221000073 Int/Topo IB signature motif; other site 488221000074 HIRAN domain; Region: HIRAN; pfam08797 488221000075 Domain of unknown function (DUF955); Region: DUF955; pfam06114 488221000076 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488221000077 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221000078 non-specific DNA binding site [nucleotide binding]; other site 488221000079 salt bridge; other site 488221000080 sequence-specific DNA binding site [nucleotide binding]; other site 488221000081 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 488221000082 non-specific DNA binding site [nucleotide binding]; other site 488221000083 salt bridge; other site 488221000084 sequence-specific DNA binding site [nucleotide binding]; other site 488221000085 Prophage antirepressor [Transcription]; Region: COG3617 488221000086 BRO family, N-terminal domain; Region: Bro-N; smart01040 488221000087 ORF6C domain; Region: ORF6C; pfam10552 488221000088 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 488221000089 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 488221000090 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221000091 Walker A motif; other site 488221000092 ATP binding site [chemical binding]; other site 488221000093 Walker B motif; other site 488221000094 arginine finger; other site 488221000095 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 488221000096 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 488221000097 YopX protein; Region: YopX; cl09859 488221000098 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 488221000099 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488221000100 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221000101 non-specific DNA binding site [nucleotide binding]; other site 488221000102 salt bridge; other site 488221000103 sequence-specific DNA binding site [nucleotide binding]; other site 488221000104 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 488221000105 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 488221000106 Int/Topo IB signature motif; other site 488221000107 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 488221000108 active site 488221000109 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 488221000110 Phage Terminase; Region: Terminase_1; pfam03354 488221000111 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 488221000112 Phage capsid family; Region: Phage_capsid; pfam05065 488221000113 LEM-like domain of lamina-associated polypeptide 2 (LAP2) and similar proteins; Region: LEM_like; cd12935 488221000114 Phage protein Gp19/Gp15/Gp42; Region: Phage_Gp19; pfam09355 488221000115 Phage-related protein [Function unknown]; Region: COG5412 488221000116 membrane protein P6; Region: PHA01399 488221000117 Phage-related protein [Function unknown]; Region: COG4722 488221000118 Phage tail protein; Region: Sipho_tail; cl17486 488221000119 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 488221000120 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 488221000121 toxin secretion/phage lysis holin; Region: holin_tox_secr; TIGR01593 488221000122 Phage holin protein (Holin_LLH); Region: Holin_LLH; pfam09682 488221000123 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221000124 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 488221000125 amidase catalytic site [active] 488221000126 Zn binding residues [ion binding]; other site 488221000127 substrate binding site [chemical binding]; other site 488221000128 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 488221000129 nucleoside/Zn binding site; other site 488221000130 dimer interface [polypeptide binding]; other site 488221000131 catalytic motif [active] 488221000132 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 488221000133 trimer interface [polypeptide binding]; other site 488221000134 active site 488221000135 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 488221000136 catalytic core [active] 488221000137 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 488221000138 DNA repair protein RadA; Provisional; Region: PRK11823 488221000139 Walker A motif; other site 488221000140 ATP binding site [chemical binding]; other site 488221000141 Walker B motif; other site 488221000142 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 488221000143 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 488221000144 active site clefts [active] 488221000145 zinc binding site [ion binding]; other site 488221000146 dimer interface [polypeptide binding]; other site 488221000147 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 488221000148 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 488221000149 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 488221000150 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488221000151 active site 488221000152 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221000153 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 488221000154 DNA polymerase I; Provisional; Region: PRK05755 488221000155 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 488221000156 active site 488221000157 metal binding site 1 [ion binding]; metal-binding site 488221000158 putative 5' ssDNA interaction site; other site 488221000159 metal binding site 3; metal-binding site 488221000160 metal binding site 2 [ion binding]; metal-binding site 488221000161 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 488221000162 putative DNA binding site [nucleotide binding]; other site 488221000163 putative metal binding site [ion binding]; other site 488221000164 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 488221000165 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 488221000166 active site 488221000167 DNA binding site [nucleotide binding] 488221000168 catalytic site [active] 488221000169 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 488221000170 Predicted membrane protein [Function unknown]; Region: COG2855 488221000171 aromatic amino acid aminotransferase; Validated; Region: PRK07309 488221000172 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 488221000173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221000174 homodimer interface [polypeptide binding]; other site 488221000175 catalytic residue [active] 488221000176 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 488221000177 Recombination protein O N terminal; Region: RecO_N; pfam11967 488221000178 Recombination protein O C terminal; Region: RecO_C; pfam02565 488221000179 putative phosphate acyltransferase; Provisional; Region: PRK05331 488221000180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 488221000181 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 488221000182 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221000183 non-specific DNA binding site [nucleotide binding]; other site 488221000184 salt bridge; other site 488221000185 sequence-specific DNA binding site [nucleotide binding]; other site 488221000186 Bacteriocin class IId cyclical uberolysin-like; Region: Bacteriocin_IId; pfam09221 488221000187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221000188 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 488221000189 Walker A/P-loop; other site 488221000190 ATP binding site [chemical binding]; other site 488221000191 Q-loop/lid; other site 488221000192 ABC transporter signature motif; other site 488221000193 Walker B; other site 488221000194 D-loop; other site 488221000195 H-loop/switch region; other site 488221000196 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 488221000197 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 488221000198 putative active site [active] 488221000199 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221000200 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221000201 Walker A/P-loop; other site 488221000202 ATP binding site [chemical binding]; other site 488221000203 Q-loop/lid; other site 488221000204 ABC transporter signature motif; other site 488221000205 Walker B; other site 488221000206 D-loop; other site 488221000207 H-loop/switch region; other site 488221000208 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 488221000209 HlyD family secretion protein; Region: HlyD_3; pfam13437 488221000210 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 488221000211 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 488221000212 ATP binding site [chemical binding]; other site 488221000213 active site 488221000214 substrate binding site [chemical binding]; other site 488221000215 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 488221000216 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 488221000217 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 488221000218 dimerization interface [polypeptide binding]; other site 488221000219 ATP binding site [chemical binding]; other site 488221000220 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 488221000221 dimerization interface [polypeptide binding]; other site 488221000222 ATP binding site [chemical binding]; other site 488221000223 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 488221000224 putative active site [active] 488221000225 catalytic triad [active] 488221000226 amidophosphoribosyltransferase; Provisional; Region: PRK07272 488221000227 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 488221000228 active site 488221000229 tetramer interface [polypeptide binding]; other site 488221000230 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488221000231 active site 488221000232 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 488221000233 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 488221000234 dimerization interface [polypeptide binding]; other site 488221000235 putative ATP binding site [chemical binding]; other site 488221000236 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 488221000237 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 488221000238 active site 488221000239 substrate binding site [chemical binding]; other site 488221000240 cosubstrate binding site; other site 488221000241 catalytic site [active] 488221000242 VanZ like family; Region: VanZ; pfam04892 488221000243 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 488221000244 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 488221000245 purine monophosphate binding site [chemical binding]; other site 488221000246 dimer interface [polypeptide binding]; other site 488221000247 putative catalytic residues [active] 488221000248 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 488221000249 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 488221000250 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 488221000251 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 488221000252 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 488221000253 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 488221000254 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 488221000255 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 488221000256 ATP-grasp domain; Region: ATP-grasp; pfam02222 488221000257 adenylosuccinate lyase; Provisional; Region: PRK07492 488221000258 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 488221000259 tetramer interface [polypeptide binding]; other site 488221000260 active site 488221000261 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 488221000262 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 488221000263 Glycosyl hydrolase family 20 (GH20) catalytic domain of dispersin B (DspB), lacto-N-biosidase (LnbB) and related proteins. Dispersin B is a soluble beta-N-acetylglucosamidase found in bacteria that hydrolyzes the beta-1,6-linkages of PGA (poly-beta-(1,6)...; Region: GH20_DspB_LnbB-like; cd06564 488221000264 active site 488221000265 Glycosyl hydrolase family 20 (GH20) catalytic domain of dispersin B (DspB), lacto-N-biosidase (LnbB) and related proteins. Dispersin B is a soluble beta-N-acetylglucosamidase found in bacteria that hydrolyzes the beta-1,6-linkages of PGA (poly-beta-(1,6)...; Region: GH20_DspB_LnbB-like; cd06564 488221000266 active site 488221000267 G5 domain; Region: G5; pfam07501 488221000268 G5 domain; Region: G5; pfam07501 488221000269 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 488221000270 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 488221000271 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488221000272 DNA-binding site [nucleotide binding]; DNA binding site 488221000273 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 488221000274 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 488221000275 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 488221000276 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 488221000277 active site 488221000278 phosphorylation site [posttranslational modification] 488221000279 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 488221000280 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 488221000281 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 488221000282 active pocket/dimerization site; other site 488221000283 active site 488221000284 phosphorylation site [posttranslational modification] 488221000285 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 488221000286 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 488221000287 dimer interface [polypeptide binding]; other site 488221000288 active site 488221000289 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 488221000290 putative active site [active] 488221000291 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 488221000292 active site 488221000293 catalytic residues [active] 488221000294 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 488221000295 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 488221000296 putative metal binding site [ion binding]; other site 488221000297 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 488221000298 active site 488221000299 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 488221000300 putative homotetramer interface [polypeptide binding]; other site 488221000301 putative homodimer-homodimer interface [polypeptide binding]; other site 488221000302 putative allosteric switch controlling residues; other site 488221000303 putative metal binding site [ion binding]; other site 488221000304 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 488221000305 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 488221000306 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 488221000307 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 488221000308 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 488221000309 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 488221000310 TrkA-N domain; Region: TrkA_N; pfam02254 488221000311 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 488221000312 active site 488221000313 Fibronectin-binding repeat; Region: SSURE; pfam11966 488221000314 Fibronectin-binding repeat; Region: SSURE; pfam11966 488221000315 Fibronectin-binding repeat; Region: SSURE; pfam11966 488221000316 Fibronectin-binding repeat; Region: SSURE; pfam11966 488221000317 Fibronectin-binding repeat; Region: SSURE; pfam11966 488221000318 Fibronectin-binding repeat; Region: SSURE; pfam11966 488221000319 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488221000320 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 488221000321 active site 488221000322 phosphorylation site [posttranslational modification] 488221000323 intermolecular recognition site; other site 488221000324 dimerization interface [polypeptide binding]; other site 488221000325 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 488221000326 DNA binding site [nucleotide binding] 488221000327 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 488221000328 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 488221000329 dimerization interface [polypeptide binding]; other site 488221000330 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 488221000331 dimer interface [polypeptide binding]; other site 488221000332 phosphorylation site [posttranslational modification] 488221000333 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 488221000334 ATP binding site [chemical binding]; other site 488221000335 Mg2+ binding site [ion binding]; other site 488221000336 G-X-G motif; other site 488221000337 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 488221000338 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 488221000339 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 488221000340 RNA binding surface [nucleotide binding]; other site 488221000341 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221000342 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 488221000343 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221000344 dimer interface [polypeptide binding]; other site 488221000345 conserved gate region; other site 488221000346 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 488221000347 ABC-ATPase subunit interface; other site 488221000348 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488221000349 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221000350 dimer interface [polypeptide binding]; other site 488221000351 conserved gate region; other site 488221000352 putative PBP binding loops; other site 488221000353 ABC-ATPase subunit interface; other site 488221000354 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 488221000355 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 488221000356 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 488221000357 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 488221000358 active site residue [active] 488221000359 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 488221000360 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 488221000361 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 488221000362 Predicted membrane protein [Function unknown]; Region: COG4709 488221000363 Predicted transcriptional regulators [Transcription]; Region: COG1695 488221000364 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 488221000365 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 488221000366 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 488221000367 putative substrate translocation pore; other site 488221000368 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 488221000369 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 488221000370 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 488221000371 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 488221000372 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 488221000373 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 488221000374 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 488221000375 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 488221000376 active site 488221000377 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 488221000378 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 488221000379 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 488221000380 NAD(P) binding site [chemical binding]; other site 488221000381 homodimer interface [polypeptide binding]; other site 488221000382 substrate binding site [chemical binding]; other site 488221000383 active site 488221000384 hypothetical protein; Provisional; Region: PHA02982 488221000385 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 488221000386 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 488221000387 active site 488221000388 motif I; other site 488221000389 motif II; other site 488221000390 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 488221000391 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 488221000392 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 488221000393 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 488221000394 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 488221000395 putative L-serine binding site [chemical binding]; other site 488221000396 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 488221000397 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 488221000398 bacteriocin, lactococcin 972 family; Region: lactococcin_972; TIGR01653 488221000399 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 488221000400 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 488221000401 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 488221000402 Walker A/P-loop; other site 488221000403 ATP binding site [chemical binding]; other site 488221000404 Q-loop/lid; other site 488221000405 ABC transporter signature motif; other site 488221000406 Walker B; other site 488221000407 D-loop; other site 488221000408 H-loop/switch region; other site 488221000409 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 488221000410 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488221000411 substrate binding pocket [chemical binding]; other site 488221000412 membrane-bound complex binding site; other site 488221000413 hinge residues; other site 488221000414 argininosuccinate lyase; Provisional; Region: PRK00855 488221000415 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 488221000416 active sites [active] 488221000417 tetramer interface [polypeptide binding]; other site 488221000418 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488221000419 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221000420 non-specific DNA binding site [nucleotide binding]; other site 488221000421 salt bridge; other site 488221000422 sequence-specific DNA binding site [nucleotide binding]; other site 488221000423 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 488221000424 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 488221000425 putative active site [active] 488221000426 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221000427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221000428 Walker A/P-loop; other site 488221000429 ATP binding site [chemical binding]; other site 488221000430 Q-loop/lid; other site 488221000431 ABC transporter signature motif; other site 488221000432 Walker B; other site 488221000433 D-loop; other site 488221000434 H-loop/switch region; other site 488221000435 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 488221000436 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 488221000437 HlyD family secretion protein; Region: HlyD_3; pfam13437 488221000438 Leucine-zipper of ternary complex factor MIP1; Region: Lzipper-MIP1; pfam14389 488221000439 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221000440 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221000441 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221000442 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221000443 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221000444 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 488221000445 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 488221000446 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221000447 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 488221000448 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 488221000449 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 488221000450 nudix motif; other site 488221000451 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 488221000452 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 488221000453 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 488221000454 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 488221000455 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 488221000456 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 488221000457 hypothetical protein; Provisional; Region: PRK13667 488221000458 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 488221000459 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 488221000460 Glycoprotease family; Region: Peptidase_M22; pfam00814 488221000461 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 488221000462 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221000463 Coenzyme A binding pocket [chemical binding]; other site 488221000464 UGMP family protein; Validated; Region: PRK09604 488221000465 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 488221000466 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 488221000467 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221000468 Transposase; Region: DDE_Tnp_ISL3; pfam01610 488221000469 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 488221000470 Helix-turn-helix domain; Region: HTH_38; pfam13936 488221000471 Transposase; Region: DDE_Tnp_ISL3; pfam01610 488221000472 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 488221000473 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221000474 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 488221000475 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 488221000476 Walker A/P-loop; other site 488221000477 ATP binding site [chemical binding]; other site 488221000478 Q-loop/lid; other site 488221000479 ABC transporter signature motif; other site 488221000480 Walker B; other site 488221000481 D-loop; other site 488221000482 H-loop/switch region; other site 488221000483 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 488221000484 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221000485 non-specific DNA binding site [nucleotide binding]; other site 488221000486 salt bridge; other site 488221000487 sequence-specific DNA binding site [nucleotide binding]; other site 488221000488 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 488221000489 CAAX protease self-immunity; Region: Abi; pfam02517 488221000490 Predicted membrane protein [Function unknown]; Region: COG4392 488221000491 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488221000492 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 488221000493 substrate binding pocket [chemical binding]; other site 488221000494 membrane-bound complex binding site; other site 488221000495 hinge residues; other site 488221000496 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 488221000497 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 488221000498 hypothetical protein; Provisional; Region: PRK06446 488221000499 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 488221000500 metal binding site [ion binding]; metal-binding site 488221000501 dimer interface [polypeptide binding]; other site 488221000502 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 488221000503 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 488221000504 Walker A/P-loop; other site 488221000505 ATP binding site [chemical binding]; other site 488221000506 Q-loop/lid; other site 488221000507 ABC transporter signature motif; other site 488221000508 Walker B; other site 488221000509 D-loop; other site 488221000510 H-loop/switch region; other site 488221000511 NIL domain; Region: NIL; pfam09383 488221000512 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 488221000513 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 488221000514 Predicted integral membrane protein [Function unknown]; Region: COG5578 488221000515 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 488221000516 HAMP domain; Region: HAMP; pfam00672 488221000517 Histidine kinase; Region: His_kinase; pfam06580 488221000518 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 488221000519 ATP binding site [chemical binding]; other site 488221000520 Mg2+ binding site [ion binding]; other site 488221000521 G-X-G motif; other site 488221000522 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 488221000523 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 488221000524 active site 488221000525 phosphorylation site [posttranslational modification] 488221000526 intermolecular recognition site; other site 488221000527 dimerization interface [polypeptide binding]; other site 488221000528 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 488221000529 flavoprotein NrdI; Provisional; Region: PRK02551 488221000530 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 488221000531 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 488221000532 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 488221000533 LytTr DNA-binding domain; Region: LytTR; smart00850 488221000534 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 488221000535 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 488221000536 homopentamer interface [polypeptide binding]; other site 488221000537 active site 488221000538 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 488221000539 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 488221000540 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 488221000541 dimerization interface [polypeptide binding]; other site 488221000542 active site 488221000543 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 488221000544 Lumazine binding domain; Region: Lum_binding; pfam00677 488221000545 Lumazine binding domain; Region: Lum_binding; pfam00677 488221000546 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 488221000547 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 488221000548 catalytic motif [active] 488221000549 Zn binding site [ion binding]; other site 488221000550 RibD C-terminal domain; Region: RibD_C; cl17279 488221000551 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 488221000552 RuvA N terminal domain; Region: RuvA_N; pfam01330 488221000553 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 488221000554 CAAX protease self-immunity; Region: Abi; pfam02517 488221000555 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 488221000556 putative dimer interface [polypeptide binding]; other site 488221000557 catalytic triad [active] 488221000558 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 488221000559 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 488221000560 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 488221000561 Cl binding site [ion binding]; other site 488221000562 oligomer interface [polypeptide binding]; other site 488221000563 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 488221000564 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 488221000565 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 488221000566 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 488221000567 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 488221000568 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 488221000569 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 488221000570 active site 488221000571 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 488221000572 ArsC family; Region: ArsC; pfam03960 488221000573 putative catalytic residues [active] 488221000574 thiol/disulfide switch; other site 488221000575 hypothetical protein; Provisional; Region: PRK05473 488221000576 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 488221000577 hypothetical protein; Provisional; Region: PRK13678 488221000578 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 488221000579 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 488221000580 Bacterial lipoprotein; Region: DUF3642; pfam12182 488221000581 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 488221000582 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 488221000583 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 488221000584 putative active site [active] 488221000585 catalytic site [active] 488221000586 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 488221000587 putative active site [active] 488221000588 catalytic site [active] 488221000589 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 488221000590 ATP cone domain; Region: ATP-cone; pfam03477 488221000591 Class III ribonucleotide reductase; Region: RNR_III; cd01675 488221000592 effector binding site; other site 488221000593 active site 488221000594 Zn binding site [ion binding]; other site 488221000595 glycine loop; other site 488221000596 Predicted acetyltransferase [General function prediction only]; Region: COG3981 488221000597 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 488221000598 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 488221000599 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 488221000600 FeS/SAM binding site; other site 488221000601 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 488221000602 active site 488221000603 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 488221000604 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 488221000605 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 488221000606 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 488221000607 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 488221000608 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 488221000609 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 488221000610 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 488221000611 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 488221000612 putative translocon binding site; other site 488221000613 protein-rRNA interface [nucleotide binding]; other site 488221000614 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 488221000615 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 488221000616 G-X-X-G motif; other site 488221000617 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 488221000618 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 488221000619 23S rRNA interface [nucleotide binding]; other site 488221000620 5S rRNA interface [nucleotide binding]; other site 488221000621 putative antibiotic binding site [chemical binding]; other site 488221000622 L25 interface [polypeptide binding]; other site 488221000623 L27 interface [polypeptide binding]; other site 488221000624 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 488221000625 23S rRNA interface [nucleotide binding]; other site 488221000626 putative translocon interaction site; other site 488221000627 signal recognition particle (SRP54) interaction site; other site 488221000628 L23 interface [polypeptide binding]; other site 488221000629 trigger factor interaction site; other site 488221000630 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 488221000631 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 488221000632 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 488221000633 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 488221000634 RNA binding site [nucleotide binding]; other site 488221000635 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 488221000636 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 488221000637 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 488221000638 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 488221000639 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 488221000640 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 488221000641 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 488221000642 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 488221000643 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 488221000644 5S rRNA interface [nucleotide binding]; other site 488221000645 L27 interface [polypeptide binding]; other site 488221000646 23S rRNA interface [nucleotide binding]; other site 488221000647 L5 interface [polypeptide binding]; other site 488221000648 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 488221000649 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 488221000650 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 488221000651 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 488221000652 23S rRNA binding site [nucleotide binding]; other site 488221000653 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 488221000654 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 488221000655 SecY translocase; Region: SecY; pfam00344 488221000656 adenylate kinase; Reviewed; Region: adk; PRK00279 488221000657 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 488221000658 AMP-binding site [chemical binding]; other site 488221000659 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 488221000660 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 488221000661 rRNA binding site [nucleotide binding]; other site 488221000662 predicted 30S ribosome binding site; other site 488221000663 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 488221000664 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 488221000665 30S ribosomal protein S13; Region: bact_S13; TIGR03631 488221000666 30S ribosomal protein S11; Validated; Region: PRK05309 488221000667 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 488221000668 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 488221000669 alphaNTD homodimer interface [polypeptide binding]; other site 488221000670 alphaNTD - beta interaction site [polypeptide binding]; other site 488221000671 alphaNTD - beta' interaction site [polypeptide binding]; other site 488221000672 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 488221000673 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 488221000674 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 488221000675 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 488221000676 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 488221000677 catalytic core [active] 488221000678 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 488221000679 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 488221000680 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 488221000681 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 488221000682 Mg2+ binding site [ion binding]; other site 488221000683 G-X-G motif; other site 488221000684 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 488221000685 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 488221000686 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 488221000687 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 488221000688 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 488221000689 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 488221000690 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 488221000691 active site 488221000692 methionine cluster; other site 488221000693 phosphorylation site [posttranslational modification] 488221000694 metal binding site [ion binding]; metal-binding site 488221000695 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 488221000696 active site 488221000697 P-loop; other site 488221000698 phosphorylation site [posttranslational modification] 488221000699 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 488221000700 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 488221000701 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 488221000702 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 488221000703 dimer interface [polypeptide binding]; other site 488221000704 active site 488221000705 glycine loop; other site 488221000706 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 488221000707 active site 488221000708 intersubunit interactions; other site 488221000709 catalytic residue [active] 488221000710 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 488221000711 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 488221000712 dimer interface [polypeptide binding]; other site 488221000713 active site 488221000714 metal binding site [ion binding]; metal-binding site 488221000715 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 488221000716 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 488221000717 HIGH motif; other site 488221000718 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 488221000719 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488221000720 active site 488221000721 KMSKS motif; other site 488221000722 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 488221000723 tRNA binding surface [nucleotide binding]; other site 488221000724 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 488221000725 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 488221000726 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 488221000727 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221000728 Coenzyme A binding pocket [chemical binding]; other site 488221000729 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 488221000730 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221000731 Walker A motif; other site 488221000732 ATP binding site [chemical binding]; other site 488221000733 Walker B motif; other site 488221000734 arginine finger; other site 488221000735 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 488221000736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3575 488221000737 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 488221000738 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 488221000739 catalytic residue [active] 488221000740 putative FPP diphosphate binding site; other site 488221000741 putative FPP binding hydrophobic cleft; other site 488221000742 dimer interface [polypeptide binding]; other site 488221000743 putative IPP diphosphate binding site; other site 488221000744 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 488221000745 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 488221000746 RIP metalloprotease RseP; Region: TIGR00054 488221000747 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 488221000748 active site 488221000749 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 488221000750 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 488221000751 putative substrate binding region [chemical binding]; other site 488221000752 prolyl-tRNA synthetase; Provisional; Region: PRK09194 488221000753 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 488221000754 dimer interface [polypeptide binding]; other site 488221000755 motif 1; other site 488221000756 active site 488221000757 motif 2; other site 488221000758 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 488221000759 putative deacylase active site [active] 488221000760 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 488221000761 active site 488221000762 motif 3; other site 488221000763 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 488221000764 anticodon binding site; other site 488221000765 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 488221000766 beta-galactosidase; Region: BGL; TIGR03356 488221000767 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 488221000768 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 488221000769 glutaminase active site [active] 488221000770 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 488221000771 dimer interface [polypeptide binding]; other site 488221000772 active site 488221000773 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 488221000774 dimer interface [polypeptide binding]; other site 488221000775 active site 488221000776 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 488221000777 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 488221000778 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 488221000779 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 488221000780 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 488221000781 carbohydrate binding site [chemical binding]; other site 488221000782 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 488221000783 carbohydrate binding site [chemical binding]; other site 488221000784 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 488221000785 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 488221000786 Ca binding site [ion binding]; other site 488221000787 active site 488221000788 catalytic site [active] 488221000789 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 488221000790 S17 interaction site [polypeptide binding]; other site 488221000791 S8 interaction site; other site 488221000792 16S rRNA interaction site [nucleotide binding]; other site 488221000793 streptomycin interaction site [chemical binding]; other site 488221000794 23S rRNA interaction site [nucleotide binding]; other site 488221000795 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 488221000796 30S ribosomal protein S7; Validated; Region: PRK05302 488221000797 elongation factor G; Reviewed; Region: PRK00007 488221000798 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 488221000799 G1 box; other site 488221000800 putative GEF interaction site [polypeptide binding]; other site 488221000801 GTP/Mg2+ binding site [chemical binding]; other site 488221000802 Switch I region; other site 488221000803 G2 box; other site 488221000804 G3 box; other site 488221000805 Switch II region; other site 488221000806 G4 box; other site 488221000807 G5 box; other site 488221000808 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 488221000809 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 488221000810 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 488221000811 DNA polymerase III PolC; Validated; Region: polC; PRK00448 488221000812 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 488221000813 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 488221000814 generic binding surface II; other site 488221000815 generic binding surface I; other site 488221000816 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 488221000817 active site 488221000818 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 488221000819 active site 488221000820 catalytic site [active] 488221000821 substrate binding site [chemical binding]; other site 488221000822 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 488221000823 putative PHP Thumb interface [polypeptide binding]; other site 488221000824 active site 488221000825 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 488221000826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 488221000827 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 488221000828 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 488221000829 Predicted membrane protein [Function unknown]; Region: COG2261 488221000830 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 488221000831 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 488221000832 RNA binding surface [nucleotide binding]; other site 488221000833 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 488221000834 active site 488221000835 uracil binding [chemical binding]; other site 488221000836 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 is...; Region: Peptidase_C1B; cd00585 488221000837 trimer interface [polypeptide binding]; other site 488221000838 active site 488221000839 G bulge; other site 488221000840 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 488221000841 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 488221000842 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 488221000843 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 488221000844 active pocket/dimerization site; other site 488221000845 active site 488221000846 phosphorylation site [posttranslational modification] 488221000847 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 488221000848 active site 488221000849 phosphorylation site [posttranslational modification] 488221000850 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 488221000851 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 488221000852 NAD binding site [chemical binding]; other site 488221000853 substrate binding site [chemical binding]; other site 488221000854 catalytic Zn binding site [ion binding]; other site 488221000855 tetramer interface [polypeptide binding]; other site 488221000856 structural Zn binding site [ion binding]; other site 488221000857 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 488221000858 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 488221000859 active site 488221000860 motif I; other site 488221000861 motif II; other site 488221000862 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 488221000863 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 488221000864 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 488221000865 dihydropteroate synthase; Region: DHPS; TIGR01496 488221000866 substrate binding pocket [chemical binding]; other site 488221000867 dimer interface [polypeptide binding]; other site 488221000868 inhibitor binding site; inhibition site 488221000869 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 488221000870 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 488221000871 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 488221000872 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 488221000873 homodecamer interface [polypeptide binding]; other site 488221000874 GTP cyclohydrolase I; Provisional; Region: PLN03044 488221000875 active site 488221000876 putative catalytic site residues [active] 488221000877 zinc binding site [ion binding]; other site 488221000878 GTP-CH-I/GFRP interaction surface; other site 488221000879 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 488221000880 homooctamer interface [polypeptide binding]; other site 488221000881 active site 488221000882 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 488221000883 catalytic center binding site [active] 488221000884 ATP binding site [chemical binding]; other site 488221000885 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 488221000886 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 488221000887 23S rRNA interface [nucleotide binding]; other site 488221000888 L3 interface [polypeptide binding]; other site 488221000889 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 488221000890 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 488221000891 active site 488221000892 catalytic residues [active] 488221000893 DNA binding site [nucleotide binding] 488221000894 Int/Topo IB signature motif; other site 488221000895 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 488221000896 Oxygen-sensitive ribonucleoside-triphosphate reductase [Nucleotide transport and metabolism]; Region: NrdD; COG1328 488221000897 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 488221000898 DNA binding site [nucleotide binding] 488221000899 active site 488221000900 Int/Topo IB signature motif; other site 488221000901 catalytic residues [active] 488221000902 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 488221000903 AAA domain; Region: AAA_14; pfam13173 488221000904 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221000905 Winged helix-turn helix; Region: HTH_29; pfam13551 488221000906 DDE superfamily endonuclease; Region: DDE_3; pfam13358 488221000907 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 488221000908 beta-galactosidase; Region: BGL; TIGR03356 488221000909 Uncharacterized conserved protein [Function unknown]; Region: COG4095 488221000910 cellobiose phosphotransferase system IIB component; Reviewed; Region: celB; PRK09590 488221000911 active site 488221000912 P-loop; other site 488221000913 phosphorylation site [posttranslational modification] 488221000914 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 488221000915 HTH domain; Region: HTH_11; pfam08279 488221000916 Mga helix-turn-helix domain; Region: Mga; pfam05043 488221000917 PRD domain; Region: PRD; pfam00874 488221000918 PRD domain; Region: PRD; pfam00874 488221000919 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 488221000920 active site 488221000921 P-loop; other site 488221000922 phosphorylation site [posttranslational modification] 488221000923 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 488221000924 active site 488221000925 phosphorylation site [posttranslational modification] 488221000926 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 488221000927 methionine cluster; other site 488221000928 active site 488221000929 phosphorylation site [posttranslational modification] 488221000930 metal binding site [ion binding]; metal-binding site 488221000931 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 488221000932 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 488221000933 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 488221000934 This family represents an uncharacterized glycosyl hydrolase family 31 (GH31) enzyme found in bacteria and eukaryotes that is related to the XylS xylosidase of Sulfolobus solfataricus. Alpha-xylosidases catalyze the release of an alpha-xylose residue...; Region: GH31_xylosidase_XylS-like; cd06595 488221000935 putative active site [active] 488221000936 putative catalytic site [active] 488221000937 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221000938 DDE superfamily endonuclease; Region: DDE_4; cl17710 488221000939 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221000940 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 488221000941 catalytic residues [active] 488221000942 dimer interface [polypeptide binding]; other site 488221000943 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 488221000944 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 488221000945 substrate binding site [chemical binding]; other site 488221000946 catalytic residues [active] 488221000947 Transposase IS200 like; Region: Y1_Tnp; pfam01797 488221000948 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 488221000949 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 488221000950 active site 488221000951 intersubunit interface [polypeptide binding]; other site 488221000952 catalytic residue [active] 488221000953 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 488221000954 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 488221000955 substrate binding site [chemical binding]; other site 488221000956 ATP binding site [chemical binding]; other site 488221000957 hypothetical protein; Provisional; Region: PRK09273 488221000958 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 488221000959 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 488221000960 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 488221000961 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 488221000962 NADP binding site [chemical binding]; other site 488221000963 homodimer interface [polypeptide binding]; other site 488221000964 active site 488221000965 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 488221000966 active pocket/dimerization site; other site 488221000967 active site 488221000968 phosphorylation site [posttranslational modification] 488221000969 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 488221000970 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 488221000971 active site 488221000972 phosphorylation site [posttranslational modification] 488221000973 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 488221000974 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 488221000975 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 488221000976 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 488221000977 Transcriptional regulators [Transcription]; Region: PurR; COG1609 488221000978 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 488221000979 DNA binding site [nucleotide binding] 488221000980 domain linker motif; other site 488221000981 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 488221000982 putative dimerization interface [polypeptide binding]; other site 488221000983 putative ligand binding site [chemical binding]; other site 488221000984 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 488221000985 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221000986 non-specific DNA binding site [nucleotide binding]; other site 488221000987 salt bridge; other site 488221000988 sequence-specific DNA binding site [nucleotide binding]; other site 488221000989 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 488221000990 MraW methylase family; Region: Methyltransf_5; pfam01795 488221000991 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 488221000992 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 488221000993 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 488221000994 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 488221000995 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 488221000996 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 488221000997 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 488221000998 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 488221000999 Mg++ binding site [ion binding]; other site 488221001000 putative catalytic motif [active] 488221001001 putative substrate binding site [chemical binding]; other site 488221001002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221001003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 488221001004 Walker A motif; other site 488221001005 ATP binding site [chemical binding]; other site 488221001006 Walker B motif; other site 488221001007 arginine finger; other site 488221001008 UvrB/uvrC motif; Region: UVR; pfam02151 488221001009 MoxR-like ATPases [General function prediction only]; Region: COG0714 488221001010 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221001011 Walker A motif; other site 488221001012 ATP binding site [chemical binding]; other site 488221001013 Walker B motif; other site 488221001014 arginine finger; other site 488221001015 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 488221001016 LuxS protein involved in autoinducer AI2 synthesis [Signal transduction mechanisms]; Region: LuxS; COG1854 488221001017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 488221001018 hypothetical protein; Provisional; Region: PRK13663 488221001019 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 488221001020 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 488221001021 Ca binding site [ion binding]; other site 488221001022 active site 488221001023 catalytic site [active] 488221001024 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 488221001025 DDE superfamily endonuclease; Region: DDE_3; pfam13358 488221001026 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221001027 Winged helix-turn helix; Region: HTH_29; pfam13551 488221001028 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221001029 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221001030 DDE superfamily endonuclease; Region: DDE_4; cl17710 488221001031 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 488221001032 Transcriptional regulator [Transcription]; Region: LytR; COG1316 488221001033 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 488221001034 polysaccharide export protein, MPA1 family, Gram-positive type; Region: polys_exp_MPA1; TIGR01006 488221001035 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 488221001036 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 488221001037 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 488221001038 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 488221001039 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 488221001040 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488221001041 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 488221001042 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 488221001043 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 488221001044 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 488221001045 active site 488221001046 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488221001047 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 488221001048 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 488221001049 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 488221001050 NAD(P) binding site [chemical binding]; other site 488221001051 homodimer interface [polypeptide binding]; other site 488221001052 substrate binding site [chemical binding]; other site 488221001053 active site 488221001054 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 488221001055 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 488221001056 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 488221001057 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 488221001058 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 488221001059 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 488221001060 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 488221001061 putative NAD(P) binding site [chemical binding]; other site 488221001062 active site 488221001063 putative substrate binding site [chemical binding]; other site 488221001064 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 488221001065 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 488221001066 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 488221001067 active site 488221001068 homodimer interface [polypeptide binding]; other site 488221001069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 488221001070 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 488221001071 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 488221001072 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 488221001073 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 488221001074 peptide binding site [polypeptide binding]; other site 488221001075 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 488221001076 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 488221001077 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 488221001078 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 488221001079 Transglycosylase; Region: Transgly; pfam00912 488221001080 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 488221001081 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 488221001082 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 488221001083 hypothetical protein; Provisional; Region: PRK13660 488221001084 cell division protein GpsB; Provisional; Region: PRK14127 488221001085 DivIVA domain; Region: DivI1A_domain; TIGR03544 488221001086 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 488221001087 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 488221001088 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 488221001089 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 488221001090 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 488221001091 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 488221001092 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488221001093 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 488221001094 active site 488221001095 phosphorylation site [posttranslational modification] 488221001096 intermolecular recognition site; other site 488221001097 dimerization interface [polypeptide binding]; other site 488221001098 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 488221001099 DNA binding site [nucleotide binding] 488221001100 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221001101 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 488221001102 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221001103 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 488221001104 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 488221001105 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 488221001106 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 488221001107 diphosphomevalonate decarboxylase; Region: PLN02407 488221001108 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 488221001109 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 488221001110 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 488221001111 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 488221001112 homotetramer interface [polypeptide binding]; other site 488221001113 FMN binding site [chemical binding]; other site 488221001114 homodimer contacts [polypeptide binding]; other site 488221001115 putative active site [active] 488221001116 putative substrate binding site [chemical binding]; other site 488221001117 Predicted membrane protein [Function unknown]; Region: COG4758 488221001118 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 488221001119 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 488221001120 Histidine kinase; Region: HisKA_3; pfam07730 488221001121 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 488221001122 ATP binding site [chemical binding]; other site 488221001123 Mg2+ binding site [ion binding]; other site 488221001124 G-X-G motif; other site 488221001125 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 488221001126 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 488221001127 active site 488221001128 phosphorylation site [posttranslational modification] 488221001129 intermolecular recognition site; other site 488221001130 dimerization interface [polypeptide binding]; other site 488221001131 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 488221001132 DNA binding residues [nucleotide binding] 488221001133 dimerization interface [polypeptide binding]; other site 488221001134 A new structural DNA glycosylase; Region: AlkD_like; cl11434 488221001135 A new structural DNA glycosylase; Region: AlkD_like; cl11434 488221001136 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221001137 Integrase core domain; Region: rve; pfam00665 488221001138 Integrase core domain; Region: rve_2; pfam13333 488221001139 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 488221001140 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221001141 Transposase; Region: HTH_Tnp_1; cl17663 488221001142 HTH-like domain; Region: HTH_21; pfam13276 488221001143 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 488221001144 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 488221001145 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 488221001146 active site 488221001147 P-loop; other site 488221001148 phosphorylation site [posttranslational modification] 488221001149 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 488221001150 active site 488221001151 P-loop; other site 488221001152 phosphorylation site [posttranslational modification] 488221001153 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 488221001154 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 488221001155 active site 488221001156 P-loop; other site 488221001157 phosphorylation site [posttranslational modification] 488221001158 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 488221001159 active site 488221001160 phosphorylation site [posttranslational modification] 488221001161 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 488221001162 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 488221001163 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 488221001164 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 488221001165 trigger factor; Provisional; Region: tig; PRK01490 488221001166 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 488221001167 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 488221001168 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 488221001169 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 488221001170 DNA binding site [nucleotide binding] 488221001171 AAA domain; Region: AAA_30; pfam13604 488221001172 Family description; Region: UvrD_C_2; pfam13538 488221001173 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 488221001174 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 488221001175 Catalytic site [active] 488221001176 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 488221001177 ribonuclease HIII; Provisional; Region: PRK00996 488221001178 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 488221001179 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 488221001180 RNA/DNA hybrid binding site [nucleotide binding]; other site 488221001181 active site 488221001182 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 488221001183 Colicin V production protein; Region: Colicin_V; pfam02674 488221001184 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 488221001185 MutS domain III; Region: MutS_III; pfam05192 488221001186 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 488221001187 Walker A/P-loop; other site 488221001188 ATP binding site [chemical binding]; other site 488221001189 Q-loop/lid; other site 488221001190 ABC transporter signature motif; other site 488221001191 Walker B; other site 488221001192 D-loop; other site 488221001193 H-loop/switch region; other site 488221001194 Smr domain; Region: Smr; pfam01713 488221001195 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 488221001196 amino acid carrier protein; Region: agcS; TIGR00835 488221001197 Uncharacterized conserved protein [Function unknown]; Region: COG2128 488221001198 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 488221001199 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 488221001200 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 488221001201 gating phenylalanine in ion channel; other site 488221001202 seryl-tRNA synthetase; Provisional; Region: PRK05431 488221001203 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 488221001204 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 488221001205 dimer interface [polypeptide binding]; other site 488221001206 active site 488221001207 motif 1; other site 488221001208 motif 2; other site 488221001209 motif 3; other site 488221001210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4687 488221001211 aspartate kinase; Reviewed; Region: PRK09034 488221001212 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 488221001213 putative catalytic residues [active] 488221001214 putative nucleotide binding site [chemical binding]; other site 488221001215 putative aspartate binding site [chemical binding]; other site 488221001216 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 488221001217 allosteric regulatory residue; other site 488221001218 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 488221001219 enoyl-CoA hydratase; Provisional; Region: PRK07260 488221001220 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 488221001221 substrate binding site [chemical binding]; other site 488221001222 oxyanion hole (OAH) forming residues; other site 488221001223 trimer interface [polypeptide binding]; other site 488221001224 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 488221001225 MarR family; Region: MarR_2; pfam12802 488221001226 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 488221001227 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 488221001228 dimer interface [polypeptide binding]; other site 488221001229 active site 488221001230 CoA binding pocket [chemical binding]; other site 488221001231 acyl carrier protein; Provisional; Region: acpP; PRK00982 488221001232 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 488221001233 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 488221001234 FMN binding site [chemical binding]; other site 488221001235 substrate binding site [chemical binding]; other site 488221001236 putative catalytic residue [active] 488221001237 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 488221001238 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 488221001239 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 488221001240 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 488221001241 NAD(P) binding site [chemical binding]; other site 488221001242 homotetramer interface [polypeptide binding]; other site 488221001243 homodimer interface [polypeptide binding]; other site 488221001244 active site 488221001245 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 488221001246 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 488221001247 dimer interface [polypeptide binding]; other site 488221001248 active site 488221001249 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 488221001250 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 488221001251 carboxyltransferase (CT) interaction site; other site 488221001252 biotinylation site [posttranslational modification]; other site 488221001253 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 488221001254 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 488221001255 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 488221001256 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 488221001257 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 488221001258 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 488221001259 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 488221001260 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 488221001261 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 488221001262 CAAX protease self-immunity; Region: Abi; pfam02517 488221001263 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 488221001264 putative RNA binding site [nucleotide binding]; other site 488221001265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 488221001266 elongation factor P; Validated; Region: PRK00529 488221001267 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 488221001268 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 488221001269 RNA binding site [nucleotide binding]; other site 488221001270 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 488221001271 RNA binding site [nucleotide binding]; other site 488221001272 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 488221001273 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 488221001274 GatB domain; Region: GatB_Yqey; pfam02637 488221001275 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 488221001276 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 488221001277 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 488221001278 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 488221001279 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 488221001280 G1 box; other site 488221001281 putative GEF interaction site [polypeptide binding]; other site 488221001282 GTP/Mg2+ binding site [chemical binding]; other site 488221001283 Switch I region; other site 488221001284 G2 box; other site 488221001285 G3 box; other site 488221001286 Switch II region; other site 488221001287 G4 box; other site 488221001288 G5 box; other site 488221001289 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 488221001290 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 488221001291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 488221001292 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 488221001293 DAK2 domain; Region: Dak2; pfam02734 488221001294 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 488221001295 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 488221001296 PYR/PP interface [polypeptide binding]; other site 488221001297 dimer interface [polypeptide binding]; other site 488221001298 TPP binding site [chemical binding]; other site 488221001299 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 488221001300 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 488221001301 TPP-binding site [chemical binding]; other site 488221001302 dimer interface [polypeptide binding]; other site 488221001303 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 488221001304 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 488221001305 putative valine binding site [chemical binding]; other site 488221001306 dimer interface [polypeptide binding]; other site 488221001307 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 488221001308 ketol-acid reductoisomerase; Provisional; Region: PRK05479 488221001309 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 488221001310 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 488221001311 threonine dehydratase; Validated; Region: PRK08639 488221001312 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 488221001313 tetramer interface [polypeptide binding]; other site 488221001314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221001315 catalytic residue [active] 488221001316 C-terminal regulatory domain of Threonine dehydratase; Region: Thr_dehydrat_C; pfam00585 488221001317 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488221001318 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221001319 Walker A/P-loop; other site 488221001320 ATP binding site [chemical binding]; other site 488221001321 Q-loop/lid; other site 488221001322 ABC transporter signature motif; other site 488221001323 Walker B; other site 488221001324 D-loop; other site 488221001325 H-loop/switch region; other site 488221001326 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 488221001327 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488221001328 substrate binding pocket [chemical binding]; other site 488221001329 membrane-bound complex binding site; other site 488221001330 hinge residues; other site 488221001331 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221001332 dimer interface [polypeptide binding]; other site 488221001333 conserved gate region; other site 488221001334 putative PBP binding loops; other site 488221001335 ABC-ATPase subunit interface; other site 488221001336 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 488221001337 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 488221001338 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 488221001339 Transposase; Region: DEDD_Tnp_IS110; pfam01548 488221001340 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 488221001341 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 488221001342 active site 488221001343 DNA polymerase IV; Validated; Region: PRK02406 488221001344 DNA binding site [nucleotide binding] 488221001345 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 488221001346 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 488221001347 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 488221001348 Transcriptional regulators [Transcription]; Region: MarR; COG1846 488221001349 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 488221001350 non-specific DNA interactions [nucleotide binding]; other site 488221001351 DNA binding site [nucleotide binding] 488221001352 sequence specific DNA binding site [nucleotide binding]; other site 488221001353 putative cAMP binding site [chemical binding]; other site 488221001354 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 488221001355 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 488221001356 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 488221001357 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 488221001358 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 488221001359 methionine cluster; other site 488221001360 active site 488221001361 phosphorylation site [posttranslational modification] 488221001362 metal binding site [ion binding]; metal-binding site 488221001363 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 488221001364 beta-galactosidase; Region: BGL; TIGR03356 488221001365 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 488221001366 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 488221001367 PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two...; Region: PTS_IIB_lactose; cd05565 488221001368 active site 488221001369 P-loop; other site 488221001370 phosphorylation site [posttranslational modification] 488221001371 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 488221001372 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 488221001373 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 488221001374 TrkA-N domain; Region: TrkA_N; pfam02254 488221001375 TrkA-C domain; Region: TrkA_C; pfam02080 488221001376 TrkA-N domain; Region: TrkA_N; pfam02254 488221001377 TrkA-C domain; Region: TrkA_C; pfam02080 488221001378 Uncharacterized conserved protein [Function unknown]; Region: COG1912 488221001379 hypothetical protein; Provisional; Region: PRK13661 488221001380 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 488221001381 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 488221001382 Walker A/P-loop; other site 488221001383 ATP binding site [chemical binding]; other site 488221001384 Q-loop/lid; other site 488221001385 ABC transporter signature motif; other site 488221001386 Walker B; other site 488221001387 D-loop; other site 488221001388 H-loop/switch region; other site 488221001389 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 488221001390 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 488221001391 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 488221001392 Walker A/P-loop; other site 488221001393 ATP binding site [chemical binding]; other site 488221001394 Q-loop/lid; other site 488221001395 ABC transporter signature motif; other site 488221001396 Walker B; other site 488221001397 D-loop; other site 488221001398 H-loop/switch region; other site 488221001399 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 488221001400 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 488221001401 Predicted membrane protein [Function unknown]; Region: COG3601 488221001402 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 488221001403 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 488221001404 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 488221001405 active site 488221001406 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 488221001407 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 488221001408 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 488221001409 CTP synthetase; Validated; Region: pyrG; PRK05380 488221001410 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 488221001411 Catalytic site [active] 488221001412 active site 488221001413 UTP binding site [chemical binding]; other site 488221001414 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 488221001415 active site 488221001416 putative oxyanion hole; other site 488221001417 catalytic triad [active] 488221001418 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 488221001419 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 488221001420 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 488221001421 PhoU domain; Region: PhoU; pfam01895 488221001422 PhoU domain; Region: PhoU; pfam01895 488221001423 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 488221001424 Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with...; Region: GH85_ENGase; cd06547 488221001425 putative active site [active] 488221001426 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 488221001427 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 488221001428 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 488221001429 G5 domain; Region: G5; pfam07501 488221001430 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 488221001431 Phosphoglycerate kinase; Region: PGK; pfam00162 488221001432 substrate binding site [chemical binding]; other site 488221001433 hinge regions; other site 488221001434 ADP binding site [chemical binding]; other site 488221001435 catalytic site [active] 488221001436 Predicted membrane protein [Function unknown]; Region: COG4129 488221001437 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 488221001438 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 488221001439 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 488221001440 DNA binding residues [nucleotide binding] 488221001441 putative dimer interface [polypeptide binding]; other site 488221001442 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 488221001443 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 488221001444 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 488221001445 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 488221001446 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 488221001447 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 488221001448 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 488221001449 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 488221001450 HsdM N-terminal domain; Region: HsdM_N; pfam12161 488221001451 Methyltransferase domain; Region: Methyltransf_26; pfam13659 488221001452 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 488221001453 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 488221001454 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 488221001455 ATP binding site [chemical binding]; other site 488221001456 putative Mg++ binding site [ion binding]; other site 488221001457 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 488221001458 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 488221001459 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 488221001460 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 488221001461 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 488221001462 dimer interface [polypeptide binding]; other site 488221001463 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 488221001464 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 488221001465 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 488221001466 nucleotide binding site [chemical binding]; other site 488221001467 NEF interaction site [polypeptide binding]; other site 488221001468 SBD interface [polypeptide binding]; other site 488221001469 chaperone protein DnaJ; Provisional; Region: PRK14276 488221001470 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 488221001471 HSP70 interaction site [polypeptide binding]; other site 488221001472 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 488221001473 substrate binding site [polypeptide binding]; other site 488221001474 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 488221001475 Zn binding sites [ion binding]; other site 488221001476 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 488221001477 substrate binding site [polypeptide binding]; other site 488221001478 dimer interface [polypeptide binding]; other site 488221001479 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 488221001480 HIT family signature motif; other site 488221001481 catalytic residue [active] 488221001482 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 488221001483 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 488221001484 Walker A/P-loop; other site 488221001485 ATP binding site [chemical binding]; other site 488221001486 Q-loop/lid; other site 488221001487 ABC transporter signature motif; other site 488221001488 Walker B; other site 488221001489 D-loop; other site 488221001490 H-loop/switch region; other site 488221001491 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 488221001492 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 488221001493 LytTr DNA-binding domain; Region: LytTR; pfam04397 488221001494 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 488221001495 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 488221001496 active site 488221001497 phosphorylation site [posttranslational modification] 488221001498 intermolecular recognition site; other site 488221001499 dimerization interface [polypeptide binding]; other site 488221001500 LytTr DNA-binding domain; Region: LytTR; pfam04397 488221001501 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 488221001502 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 488221001503 ATP binding site [chemical binding]; other site 488221001504 Mg2+ binding site [ion binding]; other site 488221001505 G-X-G motif; other site 488221001506 COMC family; Region: ComC; pfam03047 488221001507 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 488221001508 HlyD family secretion protein; Region: HlyD_3; pfam13437 488221001509 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 488221001510 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 488221001511 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221001512 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221001513 DDE superfamily endonuclease; Region: DDE_4; cl17710 488221001514 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221001515 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 488221001516 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221001517 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 488221001518 CAAX protease self-immunity; Region: Abi; pfam02517 488221001519 CAAX protease self-immunity; Region: Abi; pfam02517 488221001520 Phosphotransferase enzyme family; Region: APH; pfam01636 488221001521 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 488221001522 substrate binding site [chemical binding]; other site 488221001523 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 488221001524 S-adenosylmethionine binding site [chemical binding]; other site 488221001525 ribosome maturation protein RimP; Reviewed; Region: PRK00092 488221001526 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 488221001527 putative oligomer interface [polypeptide binding]; other site 488221001528 putative RNA binding site [nucleotide binding]; other site 488221001529 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 488221001530 NusA N-terminal domain; Region: NusA_N; pfam08529 488221001531 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 488221001532 RNA binding site [nucleotide binding]; other site 488221001533 homodimer interface [polypeptide binding]; other site 488221001534 NusA-like KH domain; Region: KH_5; pfam13184 488221001535 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 488221001536 G-X-X-G motif; other site 488221001537 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 488221001538 putative RNA binding cleft [nucleotide binding]; other site 488221001539 hypothetical protein; Provisional; Region: PRK07283 488221001540 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 488221001541 translation initiation factor IF-2; Region: IF-2; TIGR00487 488221001542 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 488221001543 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 488221001544 G1 box; other site 488221001545 putative GEF interaction site [polypeptide binding]; other site 488221001546 GTP/Mg2+ binding site [chemical binding]; other site 488221001547 Switch I region; other site 488221001548 G2 box; other site 488221001549 G3 box; other site 488221001550 Switch II region; other site 488221001551 G4 box; other site 488221001552 G5 box; other site 488221001553 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 488221001554 Translation-initiation factor 2; Region: IF-2; pfam11987 488221001555 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 488221001556 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 488221001557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221001558 Transposase; Region: DDE_Tnp_ISL3; pfam01610 488221001559 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 488221001560 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221001561 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221001562 DDE superfamily endonuclease; Region: DDE_4; cl17710 488221001563 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 488221001564 Uncharacterized conserved protein [Function unknown]; Region: COG2461 488221001565 Family of unknown function (DUF438); Region: DUF438; pfam04282 488221001566 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 488221001567 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 488221001568 putative active site [active] 488221001569 heme pocket [chemical binding]; other site 488221001570 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 488221001571 hypothetical protein; Provisional; Region: PRK07758 488221001572 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 488221001573 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 488221001574 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 488221001575 AAA domain; Region: AAA_18; pfam13238 488221001576 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 488221001577 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488221001578 active site 488221001579 HIGH motif; other site 488221001580 nucleotide binding site [chemical binding]; other site 488221001581 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 488221001582 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 488221001583 active site 488221001584 KMSKS motif; other site 488221001585 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 488221001586 tRNA binding surface [nucleotide binding]; other site 488221001587 anticodon binding site; other site 488221001588 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 488221001589 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 488221001590 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 488221001591 Fic/DOC family; Region: Fic; pfam02661 488221001592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 488221001593 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221001594 transcriptional antiterminator BglG; Provisional; Region: PRK09772 488221001595 CAT RNA binding domain; Region: CAT_RBD; smart01061 488221001596 PRD domain; Region: PRD; pfam00874 488221001597 PRD domain; Region: PRD; pfam00874 488221001598 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 488221001599 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 488221001600 active site turn [active] 488221001601 phosphorylation site [posttranslational modification] 488221001602 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 488221001603 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 488221001604 HPr interaction site; other site 488221001605 glycerol kinase (GK) interaction site [polypeptide binding]; other site 488221001606 active site 488221001607 phosphorylation site [posttranslational modification] 488221001608 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 488221001609 beta-galactosidase; Region: BGL; TIGR03356 488221001610 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 488221001611 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 488221001612 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 488221001613 dimer interface [polypeptide binding]; other site 488221001614 motif 1; other site 488221001615 active site 488221001616 motif 2; other site 488221001617 motif 3; other site 488221001618 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 488221001619 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221001620 Coenzyme A binding pocket [chemical binding]; other site 488221001621 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 488221001622 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 488221001623 putative tRNA-binding site [nucleotide binding]; other site 488221001624 B3/4 domain; Region: B3_4; pfam03483 488221001625 tRNA synthetase B5 domain; Region: B5; smart00874 488221001626 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 488221001627 dimer interface [polypeptide binding]; other site 488221001628 motif 1; other site 488221001629 motif 3; other site 488221001630 motif 2; other site 488221001631 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 488221001632 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 488221001633 putative catalytic site [active] 488221001634 putative metal binding site [ion binding]; other site 488221001635 putative phosphate binding site [ion binding]; other site 488221001636 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 488221001637 Helix-turn-helix domain; Region: HTH_38; pfam13936 488221001638 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 488221001639 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221001640 non-specific DNA binding site [nucleotide binding]; other site 488221001641 salt bridge; other site 488221001642 sequence-specific DNA binding site [nucleotide binding]; other site 488221001643 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 488221001644 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 488221001645 THF binding site; other site 488221001646 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 488221001647 substrate binding site [chemical binding]; other site 488221001648 THF binding site; other site 488221001649 zinc-binding site [ion binding]; other site 488221001650 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 488221001651 FAD binding site [chemical binding]; other site 488221001652 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 488221001653 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 488221001654 RNase E interface [polypeptide binding]; other site 488221001655 trimer interface [polypeptide binding]; other site 488221001656 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 488221001657 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 488221001658 RNase E interface [polypeptide binding]; other site 488221001659 trimer interface [polypeptide binding]; other site 488221001660 active site 488221001661 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 488221001662 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 488221001663 RNA binding site [nucleotide binding]; other site 488221001664 domain interface; other site 488221001665 serine O-acetyltransferase; Region: cysE; TIGR01172 488221001666 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 488221001667 trimer interface [polypeptide binding]; other site 488221001668 active site 488221001669 substrate binding site [chemical binding]; other site 488221001670 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221001671 Coenzyme A binding pocket [chemical binding]; other site 488221001672 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 488221001673 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221001674 Coenzyme A binding pocket [chemical binding]; other site 488221001675 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 488221001676 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 488221001677 active site 488221001678 HIGH motif; other site 488221001679 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 488221001680 KMSKS motif; other site 488221001681 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 488221001682 tRNA binding surface [nucleotide binding]; other site 488221001683 anticodon binding site; other site 488221001684 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 488221001685 active site 488221001686 metal binding site [ion binding]; metal-binding site 488221001687 dimerization interface [polypeptide binding]; other site 488221001688 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 488221001689 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 488221001690 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 488221001691 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 488221001692 FtsX-like permease family; Region: FtsX; pfam02687 488221001693 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 488221001694 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 488221001695 Walker A/P-loop; other site 488221001696 ATP binding site [chemical binding]; other site 488221001697 Q-loop/lid; other site 488221001698 ABC transporter signature motif; other site 488221001699 Walker B; other site 488221001700 D-loop; other site 488221001701 H-loop/switch region; other site 488221001702 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 488221001703 FtsX-like permease family; Region: FtsX; pfam02687 488221001704 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488221001705 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 488221001706 active site 488221001707 phosphorylation site [posttranslational modification] 488221001708 intermolecular recognition site; other site 488221001709 dimerization interface [polypeptide binding]; other site 488221001710 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 488221001711 DNA binding site [nucleotide binding] 488221001712 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 488221001713 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 488221001714 dimerization interface [polypeptide binding]; other site 488221001715 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 488221001716 dimer interface [polypeptide binding]; other site 488221001717 phosphorylation site [posttranslational modification] 488221001718 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 488221001719 ATP binding site [chemical binding]; other site 488221001720 Mg2+ binding site [ion binding]; other site 488221001721 G-X-G motif; other site 488221001722 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 488221001723 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 488221001724 intersubunit interface [polypeptide binding]; other site 488221001725 active site 488221001726 zinc binding site [ion binding]; other site 488221001727 Na+ binding site [ion binding]; other site 488221001728 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 488221001729 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 488221001730 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 488221001731 FAD binding pocket [chemical binding]; other site 488221001732 FAD binding motif [chemical binding]; other site 488221001733 phosphate binding motif [ion binding]; other site 488221001734 beta-alpha-beta structure motif; other site 488221001735 NAD binding pocket [chemical binding]; other site 488221001736 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221001737 dimer interface [polypeptide binding]; other site 488221001738 conserved gate region; other site 488221001739 putative PBP binding loops; other site 488221001740 ABC-ATPase subunit interface; other site 488221001741 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221001742 dimer interface [polypeptide binding]; other site 488221001743 conserved gate region; other site 488221001744 putative PBP binding loops; other site 488221001745 ABC-ATPase subunit interface; other site 488221001746 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 488221001747 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488221001748 substrate binding pocket [chemical binding]; other site 488221001749 membrane-bound complex binding site; other site 488221001750 hinge residues; other site 488221001751 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488221001752 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 488221001753 Walker A/P-loop; other site 488221001754 ATP binding site [chemical binding]; other site 488221001755 Q-loop/lid; other site 488221001756 ABC transporter signature motif; other site 488221001757 Walker B; other site 488221001758 D-loop; other site 488221001759 H-loop/switch region; other site 488221001760 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 488221001761 DHH family; Region: DHH; pfam01368 488221001762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 488221001763 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 488221001764 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 488221001765 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 488221001766 Predicted esterase [General function prediction only]; Region: COG0627 488221001767 S-formylglutathione hydrolase; Region: PLN02442 488221001768 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 488221001769 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 488221001770 FemAB family; Region: FemAB; pfam02388 488221001771 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 488221001772 active site 488221001773 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 488221001774 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 488221001775 GIY-YIG motif/motif A; other site 488221001776 active site 488221001777 catalytic site [active] 488221001778 putative DNA binding site [nucleotide binding]; other site 488221001779 metal binding site [ion binding]; metal-binding site 488221001780 UvrB/uvrC motif; Region: UVR; pfam02151 488221001781 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 488221001782 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 488221001783 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 488221001784 active site 488221001785 metal binding site [ion binding]; metal-binding site 488221001786 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488221001787 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 488221001788 substrate binding pocket [chemical binding]; other site 488221001789 membrane-bound complex binding site; other site 488221001790 hinge residues; other site 488221001791 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 488221001792 dimer interface [polypeptide binding]; other site 488221001793 FMN binding site [chemical binding]; other site 488221001794 dipeptidase PepV; Reviewed; Region: PRK07318 488221001795 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 488221001796 active site 488221001797 metal binding site [ion binding]; metal-binding site 488221001798 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 488221001799 putative uracil binding site [chemical binding]; other site 488221001800 putative active site [active] 488221001801 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 488221001802 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 488221001803 active site residue [active] 488221001804 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 488221001805 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 488221001806 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 488221001807 putative oligomer interface [polypeptide binding]; other site 488221001808 putative active site [active] 488221001809 metal binding site [ion binding]; metal-binding site 488221001810 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 488221001811 nucleotide binding site/active site [active] 488221001812 HIT family signature motif; other site 488221001813 catalytic residue [active] 488221001814 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 488221001815 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 488221001816 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 488221001817 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 488221001818 23S rRNA interface [nucleotide binding]; other site 488221001819 L7/L12 interface [polypeptide binding]; other site 488221001820 putative thiostrepton binding site; other site 488221001821 L25 interface [polypeptide binding]; other site 488221001822 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 488221001823 mRNA/rRNA interface [nucleotide binding]; other site 488221001824 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 488221001825 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 488221001826 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221001827 Walker A/P-loop; other site 488221001828 ATP binding site [chemical binding]; other site 488221001829 Q-loop/lid; other site 488221001830 ABC transporter signature motif; other site 488221001831 Walker B; other site 488221001832 D-loop; other site 488221001833 H-loop/switch region; other site 488221001834 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 488221001835 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 488221001836 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 488221001837 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 488221001838 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 488221001839 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 488221001840 putative active site [active] 488221001841 catalytic triad [active] 488221001842 PA_2: Protease-associated (PA) domain subgroup 2. A subgroup of PA-domain containing proteins. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is...; Region: PA_2; cd04819 488221001843 PA/protease or protease-like domain interface [polypeptide binding]; other site 488221001844 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 488221001845 catalytic residues [active] 488221001846 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 488221001847 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 488221001848 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 488221001849 active site 488221001850 phosphorylation site [posttranslational modification] 488221001851 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 488221001852 active site 488221001853 P-loop; other site 488221001854 phosphorylation site [posttranslational modification] 488221001855 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 488221001856 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 488221001857 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 488221001858 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 488221001859 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 488221001860 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 488221001861 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 488221001862 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 488221001863 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 488221001864 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 488221001865 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 488221001866 G5 domain; Region: G5; pfam07501 488221001867 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 488221001868 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 488221001869 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221001870 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 488221001871 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 488221001872 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 488221001873 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 488221001874 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 488221001875 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 488221001876 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 488221001877 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 488221001878 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 488221001879 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 488221001880 catalytic residues [active] 488221001881 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 488221001882 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 488221001883 SelR domain; Region: SelR; pfam01641 488221001884 Response regulator receiver domain; Region: Response_reg; pfam00072 488221001885 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 488221001886 active site 488221001887 phosphorylation site [posttranslational modification] 488221001888 intermolecular recognition site; other site 488221001889 dimerization interface [polypeptide binding]; other site 488221001890 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 488221001891 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 488221001892 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 488221001893 Cache domain; Region: Cache_1; pfam02743 488221001894 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 488221001895 dimerization interface [polypeptide binding]; other site 488221001896 Histidine kinase; Region: His_kinase; pfam06580 488221001897 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 488221001898 ATP binding site [chemical binding]; other site 488221001899 Mg2+ binding site [ion binding]; other site 488221001900 G-X-G motif; other site 488221001901 hypothetical protein; Provisional; Region: PRK13690 488221001902 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 488221001903 G5 domain; Region: G5; pfam07501 488221001904 G5 domain; Region: G5; pfam07501 488221001905 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 488221001906 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 488221001907 aminodeoxychorismate synthase; Provisional; Region: PRK07508 488221001908 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 488221001909 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 488221001910 substrate-cofactor binding pocket; other site 488221001911 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 488221001912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221001913 catalytic residue [active] 488221001914 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 488221001915 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221001916 Excalibur calcium-binding domain; Region: Excalibur; smart00894 488221001917 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 488221001918 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 488221001919 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 488221001920 nucleotide binding site [chemical binding]; other site 488221001921 thymidylate synthase; Reviewed; Region: thyA; PRK01827 488221001922 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 488221001923 dimerization interface [polypeptide binding]; other site 488221001924 active site 488221001925 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 488221001926 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 488221001927 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 488221001928 GTPases [General function prediction only]; Region: HflX; COG2262 488221001929 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 488221001930 HflX GTPase family; Region: HflX; cd01878 488221001931 G1 box; other site 488221001932 GTP/Mg2+ binding site [chemical binding]; other site 488221001933 Switch I region; other site 488221001934 G2 box; other site 488221001935 G3 box; other site 488221001936 Switch II region; other site 488221001937 G4 box; other site 488221001938 G5 box; other site 488221001939 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 488221001940 ribonuclease Z; Region: RNase_Z; TIGR02651 488221001941 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 488221001942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488221001943 NAD(P) binding site [chemical binding]; other site 488221001944 active site 488221001945 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488221001946 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 488221001947 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 488221001948 dimerization interface [polypeptide binding]; other site 488221001949 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 488221001950 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 488221001951 active site residue [active] 488221001952 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 488221001953 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 488221001954 RNA binding surface [nucleotide binding]; other site 488221001955 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 488221001956 active site 488221001957 uracil binding [chemical binding]; other site 488221001958 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 488221001959 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 488221001960 G1 box; other site 488221001961 putative GEF interaction site [polypeptide binding]; other site 488221001962 GTP/Mg2+ binding site [chemical binding]; other site 488221001963 Switch I region; other site 488221001964 G2 box; other site 488221001965 G3 box; other site 488221001966 Switch II region; other site 488221001967 G4 box; other site 488221001968 G5 box; other site 488221001969 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 488221001970 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 488221001971 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 488221001972 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 488221001973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 488221001974 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 488221001975 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221001976 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 488221001977 Walker A/P-loop; other site 488221001978 ATP binding site [chemical binding]; other site 488221001979 Q-loop/lid; other site 488221001980 ABC transporter signature motif; other site 488221001981 Walker B; other site 488221001982 D-loop; other site 488221001983 H-loop/switch region; other site 488221001984 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 488221001985 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 488221001986 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 488221001987 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 488221001988 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 488221001989 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 488221001990 homodimer interface [polypeptide binding]; other site 488221001991 active site 488221001992 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 488221001993 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 488221001994 Cell division protein FtsQ; Region: FtsQ; pfam03799 488221001995 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 488221001996 active site 488221001997 dimer interface [polypeptide binding]; other site 488221001998 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488221001999 active site 488221002000 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 488221002001 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221002002 Walker A/P-loop; other site 488221002003 ATP binding site [chemical binding]; other site 488221002004 Q-loop/lid; other site 488221002005 ABC transporter signature motif; other site 488221002006 Walker B; other site 488221002007 D-loop; other site 488221002008 H-loop/switch region; other site 488221002009 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 488221002010 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 488221002011 substrate binding pocket [chemical binding]; other site 488221002012 membrane-bound complex binding site; other site 488221002013 hinge residues; other site 488221002014 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221002015 dimer interface [polypeptide binding]; other site 488221002016 conserved gate region; other site 488221002017 putative PBP binding loops; other site 488221002018 ABC-ATPase subunit interface; other site 488221002019 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 488221002020 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221002021 dimer interface [polypeptide binding]; other site 488221002022 conserved gate region; other site 488221002023 putative PBP binding loops; other site 488221002024 ABC-ATPase subunit interface; other site 488221002025 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 488221002026 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 488221002027 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 488221002028 dimer interface [polypeptide binding]; other site 488221002029 putative anticodon binding site; other site 488221002030 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 488221002031 motif 1; other site 488221002032 active site 488221002033 motif 2; other site 488221002034 motif 3; other site 488221002035 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 488221002036 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 488221002037 teramer interface [polypeptide binding]; other site 488221002038 active site 488221002039 FMN binding site [chemical binding]; other site 488221002040 catalytic residues [active] 488221002041 Putative transcription activator [Transcription]; Region: TenA; COG0819 488221002042 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 488221002043 substrate binding site [chemical binding]; other site 488221002044 multimerization interface [polypeptide binding]; other site 488221002045 ATP binding site [chemical binding]; other site 488221002046 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 488221002047 thiamine phosphate binding site [chemical binding]; other site 488221002048 active site 488221002049 pyrophosphate binding site [ion binding]; other site 488221002050 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 488221002051 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 488221002052 Walker A/P-loop; other site 488221002053 ATP binding site [chemical binding]; other site 488221002054 ABC transporter; Region: ABC_tran; pfam00005 488221002055 Q-loop/lid; other site 488221002056 ABC transporter signature motif; other site 488221002057 Walker B; other site 488221002058 D-loop; other site 488221002059 H-loop/switch region; other site 488221002060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221002061 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 488221002062 Walker A/P-loop; other site 488221002063 ATP binding site [chemical binding]; other site 488221002064 Q-loop/lid; other site 488221002065 ABC transporter signature motif; other site 488221002066 Walker B; other site 488221002067 D-loop; other site 488221002068 H-loop/switch region; other site 488221002069 Putative transcription activator [Transcription]; Region: TenA; COG0819 488221002070 Predicted membrane protein [Function unknown]; Region: COG4732 488221002071 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 488221002072 substrate binding site [chemical binding]; other site 488221002073 multimerization interface [polypeptide binding]; other site 488221002074 ATP binding site [chemical binding]; other site 488221002075 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 488221002076 thiamine phosphate binding site [chemical binding]; other site 488221002077 active site 488221002078 pyrophosphate binding site [ion binding]; other site 488221002079 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 488221002080 dimer interface [polypeptide binding]; other site 488221002081 substrate binding site [chemical binding]; other site 488221002082 ATP binding site [chemical binding]; other site 488221002083 Predicted transcriptional regulator [Transcription]; Region: COG3682 488221002084 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 488221002085 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 488221002086 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 488221002087 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 488221002088 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 488221002089 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 488221002090 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 488221002091 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 488221002092 PYR/PP interface [polypeptide binding]; other site 488221002093 dimer interface [polypeptide binding]; other site 488221002094 tetramer interface [polypeptide binding]; other site 488221002095 TPP binding site [chemical binding]; other site 488221002096 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 488221002097 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 488221002098 TPP-binding site [chemical binding]; other site 488221002099 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 488221002100 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 488221002101 active site 488221002102 DDE superfamily endonuclease; Region: DDE_3; pfam13358 488221002103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 488221002104 Winged helix-turn helix; Region: HTH_29; pfam13551 488221002105 Homeodomain-like domain; Region: HTH_23; pfam13384 488221002106 Homeodomain-like domain; Region: HTH_32; pfam13565 488221002107 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 488221002108 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 488221002109 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 488221002110 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 488221002111 putative active site [active] 488221002112 nucleotide binding site [chemical binding]; other site 488221002113 nudix motif; other site 488221002114 putative metal binding site [ion binding]; other site 488221002115 HI0933-like protein; Region: HI0933_like; pfam03486 488221002116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 488221002117 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 488221002118 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 488221002119 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 488221002120 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 488221002121 catalytic motif [active] 488221002122 Zn binding site [ion binding]; other site 488221002123 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488221002124 active site 488221002125 Clp protease; Region: CLP_protease; pfam00574 488221002126 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 488221002127 oligomer interface [polypeptide binding]; other site 488221002128 active site residues [active] 488221002129 hypothetical protein; Provisional; Region: PRK02302 488221002130 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 488221002131 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 488221002132 putative ligand binding site [chemical binding]; other site 488221002133 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 488221002134 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 488221002135 TM-ABC transporter signature motif; other site 488221002136 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 488221002137 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 488221002138 TM-ABC transporter signature motif; other site 488221002139 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 488221002140 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 488221002141 Walker A/P-loop; other site 488221002142 ATP binding site [chemical binding]; other site 488221002143 Q-loop/lid; other site 488221002144 ABC transporter signature motif; other site 488221002145 Walker B; other site 488221002146 D-loop; other site 488221002147 H-loop/switch region; other site 488221002148 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 488221002149 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 488221002150 Walker A/P-loop; other site 488221002151 ATP binding site [chemical binding]; other site 488221002152 Q-loop/lid; other site 488221002153 ABC transporter signature motif; other site 488221002154 Walker B; other site 488221002155 D-loop; other site 488221002156 H-loop/switch region; other site 488221002157 FOG: CBS domain [General function prediction only]; Region: COG0517 488221002158 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 488221002159 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 488221002160 peptide chain release factor 2; Region: prfB; TIGR00020 488221002161 PCRF domain; Region: PCRF; pfam03462 488221002162 RF-1 domain; Region: RF-1; pfam00472 488221002163 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 488221002164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221002165 Walker A/P-loop; other site 488221002166 ATP binding site [chemical binding]; other site 488221002167 Q-loop/lid; other site 488221002168 ABC transporter signature motif; other site 488221002169 Walker B; other site 488221002170 D-loop; other site 488221002171 H-loop/switch region; other site 488221002172 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 488221002173 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 488221002174 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 488221002175 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 488221002176 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 488221002177 active site turn [active] 488221002178 phosphorylation site [posttranslational modification] 488221002179 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 488221002180 HPr interaction site; other site 488221002181 glycerol kinase (GK) interaction site [polypeptide binding]; other site 488221002182 active site 488221002183 phosphorylation site [posttranslational modification] 488221002184 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 488221002185 putative catalytic site [active] 488221002186 putative metal binding site [ion binding]; other site 488221002187 putative phosphate binding site [ion binding]; other site 488221002188 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 488221002189 DEAD-like helicases superfamily; Region: DEXDc; smart00487 488221002190 ATP binding site [chemical binding]; other site 488221002191 Mg++ binding site [ion binding]; other site 488221002192 motif III; other site 488221002193 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 488221002194 nucleotide binding region [chemical binding]; other site 488221002195 ATP-binding site [chemical binding]; other site 488221002196 S-adenosylmethionine synthetase; Validated; Region: PRK05250 488221002197 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 488221002198 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 488221002199 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 488221002200 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 488221002201 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1A_like; cd04741 488221002202 active site 488221002203 FMN binding site [chemical binding]; other site 488221002204 substrate binding site [chemical binding]; other site 488221002205 catalytic residues [active] 488221002206 homodimer interface [polypeptide binding]; other site 488221002207 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 488221002208 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 488221002209 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 488221002210 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 488221002211 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 488221002212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 488221002213 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 488221002214 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 488221002215 FeS/SAM binding site; other site 488221002216 VanZ like family; Region: VanZ; pfam04892 488221002217 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 488221002218 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221002219 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221002220 ABC transporter; Region: ABC_tran_2; pfam12848 488221002221 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221002222 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 488221002223 active site 488221002224 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 488221002225 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 488221002226 KH domain; Region: KH_4; pfam13083 488221002227 G-X-X-G motif; other site 488221002228 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 488221002229 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 488221002230 RimM N-terminal domain; Region: RimM; pfam01782 488221002231 PRC-barrel domain; Region: PRC; pfam05239 488221002232 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 488221002233 ATP cone domain; Region: ATP-cone; pfam03477 488221002234 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 488221002235 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 488221002236 glutathione reductase; Validated; Region: PRK06116 488221002237 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 488221002238 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488221002239 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 488221002240 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 488221002241 HlyD family secretion protein; Region: HlyD_3; pfam13437 488221002242 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 488221002243 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 488221002244 Walker A/P-loop; other site 488221002245 ATP binding site [chemical binding]; other site 488221002246 Q-loop/lid; other site 488221002247 ABC transporter signature motif; other site 488221002248 Walker B; other site 488221002249 D-loop; other site 488221002250 H-loop/switch region; other site 488221002251 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 488221002252 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 488221002253 FtsX-like permease family; Region: FtsX; pfam02687 488221002254 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 488221002255 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 488221002256 active site 488221002257 HIGH motif; other site 488221002258 KMSKS motif; other site 488221002259 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 488221002260 tRNA binding surface [nucleotide binding]; other site 488221002261 anticodon binding site; other site 488221002262 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 488221002263 dimer interface [polypeptide binding]; other site 488221002264 putative tRNA-binding site [nucleotide binding]; other site 488221002265 Predicted transcriptional regulators [Transcription]; Region: COG1695 488221002266 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 488221002267 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 488221002268 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 488221002269 active site 488221002270 catalytic tetrad [active] 488221002271 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 488221002272 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 488221002273 classical (c) SDRs; Region: SDR_c; cd05233 488221002274 NAD(P) binding site [chemical binding]; other site 488221002275 active site 488221002276 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 488221002277 nudix motif; other site 488221002278 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 488221002279 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 488221002280 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 488221002281 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 488221002282 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 488221002283 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 488221002284 Zn binding site [ion binding]; other site 488221002285 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488221002286 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 488221002287 active site 488221002288 phosphorylation site [posttranslational modification] 488221002289 intermolecular recognition site; other site 488221002290 dimerization interface [polypeptide binding]; other site 488221002291 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 488221002292 DNA binding site [nucleotide binding] 488221002293 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 488221002294 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 488221002295 dimer interface [polypeptide binding]; other site 488221002296 phosphorylation site [posttranslational modification] 488221002297 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 488221002298 ATP binding site [chemical binding]; other site 488221002299 Mg2+ binding site [ion binding]; other site 488221002300 G-X-G motif; other site 488221002301 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 488221002302 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 488221002303 Peptidase family U32; Region: Peptidase_U32; pfam01136 488221002304 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 488221002305 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 488221002306 active site 488221002307 catalytic site [active] 488221002308 substrate binding site [chemical binding]; other site 488221002309 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 488221002310 ATP binding site [chemical binding]; other site 488221002311 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 488221002312 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 488221002313 DJ-1 family protein; Region: not_thiJ; TIGR01383 488221002314 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 488221002315 conserved cys residue [active] 488221002316 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 488221002317 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 488221002318 motif II; other site 488221002319 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 488221002320 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 488221002321 Mg2+ binding site [ion binding]; other site 488221002322 G-X-G motif; other site 488221002323 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 488221002324 anchoring element; other site 488221002325 dimer interface [polypeptide binding]; other site 488221002326 ATP binding site [chemical binding]; other site 488221002327 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 488221002328 active site 488221002329 putative metal-binding site [ion binding]; other site 488221002330 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 488221002331 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 488221002332 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 488221002333 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 488221002334 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 488221002335 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 488221002336 nudix motif; other site 488221002337 Transposase; Region: HTH_Tnp_IS630; pfam01710 488221002338 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221002339 Winged helix-turn helix; Region: HTH_33; pfam13592 488221002340 DDE superfamily endonuclease; Region: DDE_3; pfam13358 488221002341 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 488221002342 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221002343 Walker A motif; other site 488221002344 ATP binding site [chemical binding]; other site 488221002345 Walker B motif; other site 488221002346 arginine finger; other site 488221002347 UvrB/uvrC motif; Region: UVR; pfam02151 488221002348 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221002349 Walker A motif; other site 488221002350 ATP binding site [chemical binding]; other site 488221002351 Walker B motif; other site 488221002352 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 488221002353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 488221002354 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 488221002355 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221002356 dimer interface [polypeptide binding]; other site 488221002357 conserved gate region; other site 488221002358 putative PBP binding loops; other site 488221002359 ABC-ATPase subunit interface; other site 488221002360 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488221002361 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 488221002362 Walker A/P-loop; other site 488221002363 ATP binding site [chemical binding]; other site 488221002364 Q-loop/lid; other site 488221002365 ABC transporter signature motif; other site 488221002366 Walker B; other site 488221002367 D-loop; other site 488221002368 H-loop/switch region; other site 488221002369 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 488221002370 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 488221002371 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 488221002372 homodimer interface [polypeptide binding]; other site 488221002373 NADP binding site [chemical binding]; other site 488221002374 substrate binding site [chemical binding]; other site 488221002375 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 488221002376 putative substrate binding site [chemical binding]; other site 488221002377 putative ATP binding site [chemical binding]; other site 488221002378 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 488221002379 tetramer (dimer of dimers) interface [polypeptide binding]; other site 488221002380 active site 488221002381 dimer interface [polypeptide binding]; other site 488221002382 phosphopentomutase; Provisional; Region: PRK05362 488221002383 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 488221002384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 488221002385 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 488221002386 purine nucleoside phosphorylase; Provisional; Region: PRK08202 488221002387 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 488221002388 nucleophilic elbow; other site 488221002389 catalytic triad; other site 488221002390 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 488221002391 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 488221002392 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 488221002393 topology modulation protein; Provisional; Region: PRK07261 488221002394 AAA domain; Region: AAA_17; pfam13207 488221002395 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 488221002396 pantothenate kinase; Provisional; Region: PRK05439 488221002397 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 488221002398 ATP-binding site [chemical binding]; other site 488221002399 CoA-binding site [chemical binding]; other site 488221002400 Mg2+-binding site [ion binding]; other site 488221002401 Methyltransferase domain; Region: Methyltransf_31; pfam13847 488221002402 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 488221002403 S-adenosylmethionine binding site [chemical binding]; other site 488221002404 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 488221002405 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 488221002406 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 488221002407 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 488221002408 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 488221002409 intersubunit interface [polypeptide binding]; other site 488221002410 active site 488221002411 catalytic residue [active] 488221002412 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 488221002413 active site 488221002414 catalytic motif [active] 488221002415 Zn binding site [ion binding]; other site 488221002416 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 488221002417 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 488221002418 ligand binding site [chemical binding]; other site 488221002419 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 488221002420 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 488221002421 Walker A/P-loop; other site 488221002422 ATP binding site [chemical binding]; other site 488221002423 Q-loop/lid; other site 488221002424 ABC transporter signature motif; other site 488221002425 Walker B; other site 488221002426 D-loop; other site 488221002427 H-loop/switch region; other site 488221002428 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 488221002429 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 488221002430 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 488221002431 TM-ABC transporter signature motif; other site 488221002432 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 488221002433 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 488221002434 TM-ABC transporter signature motif; other site 488221002435 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 488221002436 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221002437 putative transposase OrfB; Reviewed; Region: PHA02517 488221002438 HTH-like domain; Region: HTH_21; pfam13276 488221002439 Integrase core domain; Region: rve; pfam00665 488221002440 Integrase core domain; Region: rve_2; pfam13333 488221002441 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 488221002442 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 488221002443 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 488221002444 Mg2+ binding site [ion binding]; other site 488221002445 G-X-G motif; other site 488221002446 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 488221002447 anchoring element; other site 488221002448 dimer interface [polypeptide binding]; other site 488221002449 ATP binding site [chemical binding]; other site 488221002450 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 488221002451 active site 488221002452 putative metal-binding site [ion binding]; other site 488221002453 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 488221002454 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 488221002455 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 488221002456 CAP-like domain; other site 488221002457 active site 488221002458 primary dimer interface [polypeptide binding]; other site 488221002459 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488221002460 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 488221002461 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 488221002462 homodimer interface [polypeptide binding]; other site 488221002463 substrate-cofactor binding pocket; other site 488221002464 catalytic residue [active] 488221002465 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 488221002466 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 488221002467 Predicted membrane protein [Function unknown]; Region: COG3819 488221002468 Predicted membrane protein [Function unknown]; Region: COG3817 488221002469 Protein of unknown function (DUF979); Region: DUF979; pfam06166 488221002470 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 488221002471 putative substrate binding pocket [chemical binding]; other site 488221002472 AC domain interface; other site 488221002473 catalytic triad [active] 488221002474 AB domain interface; other site 488221002475 interchain disulfide; other site 488221002476 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 488221002477 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 488221002478 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 488221002479 RNA binding site [nucleotide binding]; other site 488221002480 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 488221002481 RNA binding site [nucleotide binding]; other site 488221002482 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 488221002483 RNA binding site [nucleotide binding]; other site 488221002484 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 488221002485 RNA binding site [nucleotide binding]; other site 488221002486 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221002487 Transposase; Region: DDE_Tnp_ISL3; pfam01610 488221002488 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 488221002489 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 488221002490 GAF domain; Region: GAF_2; pfam13185 488221002491 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 488221002492 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221002493 Walker A motif; other site 488221002494 ATP binding site [chemical binding]; other site 488221002495 Walker B motif; other site 488221002496 arginine finger; other site 488221002497 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 488221002498 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 488221002499 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 488221002500 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 488221002501 Walker A/P-loop; other site 488221002502 ATP binding site [chemical binding]; other site 488221002503 Q-loop/lid; other site 488221002504 ABC transporter signature motif; other site 488221002505 Walker B; other site 488221002506 D-loop; other site 488221002507 H-loop/switch region; other site 488221002508 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 488221002509 FeS assembly protein SufD; Region: sufD; TIGR01981 488221002510 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 488221002511 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 488221002512 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488221002513 catalytic residue [active] 488221002514 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 488221002515 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 488221002516 trimerization site [polypeptide binding]; other site 488221002517 active site 488221002518 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 488221002519 FeS assembly protein SufB; Region: sufB; TIGR01980 488221002520 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 488221002521 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 488221002522 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 488221002523 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 488221002524 Domain of unknown function DUF20; Region: UPF0118; pfam01594 488221002525 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 488221002526 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 488221002527 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 488221002528 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 488221002529 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 488221002530 putative substrate binding site [chemical binding]; other site 488221002531 putative ATP binding site [chemical binding]; other site 488221002532 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 488221002533 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 488221002534 active site 488221002535 phosphorylation site [posttranslational modification] 488221002536 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 488221002537 active site 488221002538 P-loop; other site 488221002539 phosphorylation site [posttranslational modification] 488221002540 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 488221002541 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 488221002542 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 488221002543 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 488221002544 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 488221002545 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 488221002546 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 488221002547 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 488221002548 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488221002549 catalytic residue [active] 488221002550 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 488221002551 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 488221002552 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 488221002553 Ligand Binding Site [chemical binding]; other site 488221002554 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 488221002555 Putative esterase; Region: Esterase; pfam00756 488221002556 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 488221002557 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 488221002558 HsdM N-terminal domain; Region: HsdM_N; pfam12161 488221002559 Methyltransferase domain; Region: Methyltransf_26; pfam13659 488221002560 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 488221002561 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 488221002562 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 488221002563 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 488221002564 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 488221002565 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 488221002566 active site 488221002567 catalytic residues [active] 488221002568 DNA binding site [nucleotide binding] 488221002569 Int/Topo IB signature motif; other site 488221002570 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 488221002571 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 488221002572 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 488221002573 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 488221002574 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 488221002575 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 488221002576 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 488221002577 ATP binding site [chemical binding]; other site 488221002578 putative Mg++ binding site [ion binding]; other site 488221002579 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 488221002580 Arginine repressor [Transcription]; Region: ArgR; COG1438 488221002581 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 488221002582 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 488221002583 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 488221002584 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 488221002585 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 488221002586 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 488221002587 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 488221002588 active site 488221002589 PHP Thumb interface [polypeptide binding]; other site 488221002590 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 488221002591 generic binding surface II; other site 488221002592 generic binding surface I; other site 488221002593 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 488221002594 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 488221002595 active site 488221002596 ADP/pyrophosphate binding site [chemical binding]; other site 488221002597 dimerization interface [polypeptide binding]; other site 488221002598 allosteric effector site; other site 488221002599 fructose-1,6-bisphosphate binding site; other site 488221002600 pyruvate kinase; Provisional; Region: PRK05826 488221002601 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 488221002602 domain interfaces; other site 488221002603 active site 488221002604 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 488221002605 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221002606 Predicted membrane protein [Function unknown]; Region: COG3689 488221002607 Predicted permeases [General function prediction only]; Region: COG0701 488221002608 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 488221002609 active site 488221002610 Exopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3955 488221002611 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 488221002612 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 488221002613 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 488221002614 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 488221002615 RNA binding site [nucleotide binding]; other site 488221002616 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 488221002617 hypothetical protein; Provisional; Region: PRK04351 488221002618 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 488221002619 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 488221002620 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 488221002621 Walker A/P-loop; other site 488221002622 ATP binding site [chemical binding]; other site 488221002623 Q-loop/lid; other site 488221002624 ABC transporter signature motif; other site 488221002625 Walker B; other site 488221002626 D-loop; other site 488221002627 H-loop/switch region; other site 488221002628 FtsX-like permease family; Region: FtsX; pfam02687 488221002629 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 488221002630 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 488221002631 Helix-turn-helix domain; Region: HTH_38; pfam13936 488221002632 Integrase core domain; Region: rve; pfam00665 488221002633 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 488221002634 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 488221002635 homodimer interface [polypeptide binding]; other site 488221002636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221002637 catalytic residue [active] 488221002638 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 488221002639 Transposase; Region: DEDD_Tnp_IS110; pfam01548 488221002640 spermidine synthase; Provisional; Region: PRK00811 488221002641 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 488221002642 S-adenosylmethionine binding site [chemical binding]; other site 488221002643 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 488221002644 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 488221002645 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 488221002646 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 488221002647 dimer interface [polypeptide binding]; other site 488221002648 active site 488221002649 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 488221002650 catalytic residues [active] 488221002651 substrate binding site [chemical binding]; other site 488221002652 agmatine deiminase; Provisional; Region: PRK13551 488221002653 agmatine deiminase; Region: agmatine_aguA; TIGR03380 488221002654 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 488221002655 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 488221002656 putative active site; other site 488221002657 catalytic triad [active] 488221002658 putative dimer interface [polypeptide binding]; other site 488221002659 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 488221002660 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 488221002661 active site 488221002662 motif I; other site 488221002663 motif II; other site 488221002664 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 488221002665 CAAX protease self-immunity; Region: Abi; pfam02517 488221002666 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 488221002667 Transcriptional regulator [Transcription]; Region: LysR; COG0583 488221002668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 488221002669 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 488221002670 dimerization interface [polypeptide binding]; other site 488221002671 lipoprotein signal peptidase; Provisional; Region: PRK14797 488221002672 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 488221002673 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 488221002674 RNA binding surface [nucleotide binding]; other site 488221002675 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 488221002676 active site 488221002677 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 488221002678 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 488221002679 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221002680 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 488221002681 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 488221002682 nucleotide binding site [chemical binding]; other site 488221002683 homotetrameric interface [polypeptide binding]; other site 488221002684 putative phosphate binding site [ion binding]; other site 488221002685 putative allosteric binding site; other site 488221002686 PUA domain; Region: PUA; pfam01472 488221002687 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 488221002688 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 488221002689 putative catalytic cysteine [active] 488221002690 pyrroline-5-carboxylate reductase; Region: PLN02688 488221002691 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 488221002692 thymidylate kinase; Validated; Region: tmk; PRK00698 488221002693 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 488221002694 TMP-binding site; other site 488221002695 ATP-binding site [chemical binding]; other site 488221002696 DNA polymerase III subunit delta'; Validated; Region: PRK07276 488221002697 DNA polymerase III subunit delta'; Validated; Region: PRK08485 488221002698 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 488221002699 Predicted methyltransferases [General function prediction only]; Region: COG0313 488221002700 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 488221002701 putative SAM binding site [chemical binding]; other site 488221002702 putative homodimer interface [polypeptide binding]; other site 488221002703 Uncharacterized conserved protein [Function unknown]; Region: COG4283 488221002704 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 488221002705 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 488221002706 Glucose inhibited division protein A; Region: GIDA; pfam01134 488221002707 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 488221002708 putative nucleotide binding site [chemical binding]; other site 488221002709 uridine monophosphate binding site [chemical binding]; other site 488221002710 homohexameric interface [polypeptide binding]; other site 488221002711 ribosome recycling factor; Reviewed; Region: frr; PRK00083 488221002712 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 488221002713 hinge region; other site 488221002714 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 488221002715 S1 domain; Region: S1_2; pfam13509 488221002716 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 488221002717 hypothetical protein; Provisional; Region: PRK13672 488221002718 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 488221002719 PhoH-like protein; Region: PhoH; pfam02562 488221002720 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 488221002721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221002722 Coenzyme A binding pocket [chemical binding]; other site 488221002723 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 488221002724 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 488221002725 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 488221002726 SLBB domain; Region: SLBB; pfam10531 488221002727 comEA protein; Region: comE; TIGR01259 488221002728 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 488221002729 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 488221002730 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 488221002731 Competence protein; Region: Competence; pfam03772 488221002732 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 488221002733 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 488221002734 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 488221002735 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 488221002736 Walker A/P-loop; other site 488221002737 ATP binding site [chemical binding]; other site 488221002738 Q-loop/lid; other site 488221002739 ABC transporter signature motif; other site 488221002740 Walker B; other site 488221002741 D-loop; other site 488221002742 H-loop/switch region; other site 488221002743 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 488221002744 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 488221002745 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 488221002746 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 488221002747 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 488221002748 23S rRNA binding site [nucleotide binding]; other site 488221002749 L21 binding site [polypeptide binding]; other site 488221002750 L13 binding site [polypeptide binding]; other site 488221002751 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 488221002752 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 488221002753 dimer interface [polypeptide binding]; other site 488221002754 active site 488221002755 metal binding site [ion binding]; metal-binding site 488221002756 glutathione binding site [chemical binding]; other site 488221002757 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 488221002758 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 488221002759 FAD binding pocket [chemical binding]; other site 488221002760 FAD binding motif [chemical binding]; other site 488221002761 phosphate binding motif [ion binding]; other site 488221002762 beta-alpha-beta structure motif; other site 488221002763 NAD binding pocket [chemical binding]; other site 488221002764 Iron coordination center [ion binding]; other site 488221002765 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 488221002766 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 488221002767 heterodimer interface [polypeptide binding]; other site 488221002768 active site 488221002769 FMN binding site [chemical binding]; other site 488221002770 homodimer interface [polypeptide binding]; other site 488221002771 substrate binding site [chemical binding]; other site 488221002772 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221002773 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 488221002774 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 488221002775 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 488221002776 Domain of unknown function (DUF814); Region: DUF814; pfam05670 488221002777 metal-binding heat shock protein; Provisional; Region: PRK00016 488221002778 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 488221002779 GTPase Era; Reviewed; Region: era; PRK00089 488221002780 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 488221002781 G1 box; other site 488221002782 GTP/Mg2+ binding site [chemical binding]; other site 488221002783 Switch I region; other site 488221002784 G2 box; other site 488221002785 Switch II region; other site 488221002786 G3 box; other site 488221002787 G4 box; other site 488221002788 G5 box; other site 488221002789 KH domain; Region: KH_2; pfam07650 488221002790 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 488221002791 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 488221002792 DNA binding site [nucleotide binding] 488221002793 catalytic residue [active] 488221002794 H2TH interface [polypeptide binding]; other site 488221002795 putative catalytic residues [active] 488221002796 turnover-facilitating residue; other site 488221002797 intercalation triad [nucleotide binding]; other site 488221002798 8OG recognition residue [nucleotide binding]; other site 488221002799 putative reading head residues; other site 488221002800 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 488221002801 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 488221002802 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 488221002803 dephospho-CoA kinase; Region: TIGR00152 488221002804 CoA-binding site [chemical binding]; other site 488221002805 ATP-binding [chemical binding]; other site 488221002806 drug efflux system protein MdtG; Provisional; Region: PRK09874 488221002807 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 488221002808 putative substrate translocation pore; other site 488221002809 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 488221002810 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 488221002811 ribonuclease R; Region: RNase_R; TIGR02063 488221002812 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 488221002813 RNB domain; Region: RNB; pfam00773 488221002814 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 488221002815 RNA binding site [nucleotide binding]; other site 488221002816 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 488221002817 SmpB-tmRNA interface; other site 488221002818 tellurite resistance protein TehB; Provisional; Region: PRK12335 488221002819 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 488221002820 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 488221002821 S-adenosylmethionine binding site [chemical binding]; other site 488221002822 Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]; Region: CoiA; COG4469 488221002823 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 488221002824 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 488221002825 active site 488221002826 Zn binding site [ion binding]; other site 488221002827 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 488221002828 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 488221002829 S-adenosylmethionine binding site [chemical binding]; other site 488221002830 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 488221002831 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 488221002832 Integrase core domain; Region: rve; pfam00665 488221002833 Integrase core domain; Region: rve_2; pfam13333 488221002834 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 488221002835 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 488221002836 catalytic core [active] 488221002837 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 488221002838 putative deacylase active site [active] 488221002839 Predicted membrane protein [Function unknown]; Region: COG2035 488221002840 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 488221002841 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 488221002842 active site 488221002843 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 488221002844 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 488221002845 Substrate binding site; other site 488221002846 Mg++ binding site; other site 488221002847 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 488221002848 active site 488221002849 substrate binding site [chemical binding]; other site 488221002850 CoA binding site [chemical binding]; other site 488221002851 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 488221002852 dimer interface [polypeptide binding]; other site 488221002853 ADP-ribose binding site [chemical binding]; other site 488221002854 active site 488221002855 nudix motif; other site 488221002856 metal binding site [ion binding]; metal-binding site 488221002857 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 488221002858 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 488221002859 MarR family; Region: MarR_2; cl17246 488221002860 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 488221002861 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 488221002862 active site 488221002863 catalytic site [active] 488221002864 substrate binding site [chemical binding]; other site 488221002865 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 488221002866 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 488221002867 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 488221002868 putative active site [active] 488221002869 catalytic site [active] 488221002870 putative metal binding site [ion binding]; other site 488221002871 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221002872 Winged helix-turn helix; Region: HTH_29; pfam13551 488221002873 Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases; Region: TM_EGFR-like; cl17045 488221002874 dimer interface [polypeptide binding]; other site 488221002875 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 488221002876 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 488221002877 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 488221002878 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 488221002879 catalytic residues [active] 488221002880 amino acid transporter; Region: 2A0306; TIGR00909 488221002881 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 488221002882 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 488221002883 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 488221002884 metal binding site [ion binding]; metal-binding site 488221002885 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 488221002886 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221002887 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221002888 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221002889 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 488221002890 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221002891 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221002892 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221002893 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221002894 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221002895 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221002896 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221002897 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 488221002898 peptidase T; Region: peptidase-T; TIGR01882 488221002899 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 488221002900 metal binding site [ion binding]; metal-binding site 488221002901 dimer interface [polypeptide binding]; other site 488221002902 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 488221002903 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 488221002904 C-terminal domain interface [polypeptide binding]; other site 488221002905 active site 488221002906 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 488221002907 active site 488221002908 N-terminal domain interface [polypeptide binding]; other site 488221002909 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 488221002910 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 488221002911 Predicted membrane protein [Function unknown]; Region: COG2246 488221002912 GtrA-like protein; Region: GtrA; pfam04138 488221002913 Predicted membrane protein [Function unknown]; Region: COG4708 488221002914 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 488221002915 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 488221002916 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 488221002917 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 488221002918 dimer interface [polypeptide binding]; other site 488221002919 active site 488221002920 catalytic residue [active] 488221002921 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 488221002922 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 488221002923 trmE is a tRNA modification GTPase; Region: trmE; cd04164 488221002924 G1 box; other site 488221002925 GTP/Mg2+ binding site [chemical binding]; other site 488221002926 Switch I region; other site 488221002927 G2 box; other site 488221002928 Switch II region; other site 488221002929 G3 box; other site 488221002930 G4 box; other site 488221002931 G5 box; other site 488221002932 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 488221002933 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 488221002934 active site 1 [active] 488221002935 dimer interface [polypeptide binding]; other site 488221002936 hexamer interface [polypeptide binding]; other site 488221002937 active site 2 [active] 488221002938 thymidine kinase; Provisional; Region: PRK04296 488221002939 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 488221002940 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221002941 Coenzyme A binding pocket [chemical binding]; other site 488221002942 peptide chain release factor 1; Validated; Region: prfA; PRK00591 488221002943 This domain is found in peptide chain release factors; Region: PCRF; smart00937 488221002944 RF-1 domain; Region: RF-1; pfam00472 488221002945 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 488221002946 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 488221002947 S-adenosylmethionine binding site [chemical binding]; other site 488221002948 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 488221002949 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 488221002950 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221002951 Coenzyme A binding pocket [chemical binding]; other site 488221002952 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 488221002953 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 488221002954 dimer interface [polypeptide binding]; other site 488221002955 active site 488221002956 glycine-pyridoxal phosphate binding site [chemical binding]; other site 488221002957 folate binding site [chemical binding]; other site 488221002958 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 488221002959 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 488221002960 Lysozyme-like; Region: Lysozyme_like; pfam13702 488221002961 catalytic residue [active] 488221002962 Predicted secreted protein [Function unknown]; Region: COG4086 488221002963 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 488221002964 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 488221002965 TRAM domain; Region: TRAM; cl01282 488221002966 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 488221002967 S-adenosylmethionine binding site [chemical binding]; other site 488221002968 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 488221002969 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 488221002970 cofactor binding site; other site 488221002971 DNA binding site [nucleotide binding] 488221002972 substrate interaction site [chemical binding]; other site 488221002973 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 488221002974 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 488221002975 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 488221002976 CAAX protease self-immunity; Region: Abi; pfam02517 488221002977 AAA-like domain; Region: AAA_10; pfam12846 488221002978 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 488221002979 Walker A motif; other site 488221002980 ATP binding site [chemical binding]; other site 488221002981 Walker B motif; other site 488221002982 PrgI family protein; Region: PrgI; pfam12666 488221002983 Peptidase family M23; Region: Peptidase_M23; pfam01551 488221002984 CHAP domain; Region: CHAP; pfam05257 488221002985 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 488221002986 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 488221002987 Transposase domain (DUF772); Region: DUF772; pfam05598 488221002988 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221002989 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 488221002990 Helix-turn-helix domain; Region: HTH_38; pfam13936 488221002991 Integrase core domain; Region: rve; pfam00665 488221002992 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221002993 DDE superfamily endonuclease; Region: DDE_4; cl17710 488221002994 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221002995 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 488221002996 Chloramphenicol acetyltransferase; Region: CAT; cl02008 488221002997 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 488221002998 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 488221002999 active site 488221003000 HIGH motif; other site 488221003001 KMSKS motif; other site 488221003002 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 488221003003 tRNA binding surface [nucleotide binding]; other site 488221003004 anticodon binding site; other site 488221003005 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 488221003006 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221003007 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221003008 DDE superfamily endonuclease; Region: DDE_4; cl17710 488221003009 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 488221003010 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 488221003011 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221003012 Walker A/P-loop; other site 488221003013 ATP binding site [chemical binding]; other site 488221003014 Q-loop/lid; other site 488221003015 ABC transporter signature motif; other site 488221003016 Walker B; other site 488221003017 D-loop; other site 488221003018 H-loop/switch region; other site 488221003019 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 488221003020 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488221003021 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221003022 non-specific DNA binding site [nucleotide binding]; other site 488221003023 salt bridge; other site 488221003024 sequence-specific DNA binding site [nucleotide binding]; other site 488221003025 Predicted transcriptional regulator [Transcription]; Region: COG3655 488221003026 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 488221003027 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 488221003028 siderophore binding site; other site 488221003029 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 488221003030 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 488221003031 ABC-ATPase subunit interface; other site 488221003032 dimer interface [polypeptide binding]; other site 488221003033 putative PBP binding regions; other site 488221003034 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 488221003035 ABC-ATPase subunit interface; other site 488221003036 dimer interface [polypeptide binding]; other site 488221003037 putative PBP binding regions; other site 488221003038 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 488221003039 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 488221003040 Walker A/P-loop; other site 488221003041 ATP binding site [chemical binding]; other site 488221003042 Q-loop/lid; other site 488221003043 ABC transporter signature motif; other site 488221003044 Walker B; other site 488221003045 D-loop; other site 488221003046 H-loop/switch region; other site 488221003047 Protein of unknown function (DUF1603); Region: DUF1603; pfam07674 488221003048 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 488221003049 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 488221003050 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 488221003051 catalytic residues [active] 488221003052 catalytic nucleophile [active] 488221003053 Recombinase; Region: Recombinase; pfam07508 488221003054 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 488221003055 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 488221003056 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 488221003057 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 488221003058 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 488221003059 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 488221003060 homodimer interface [polypeptide binding]; other site 488221003061 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 488221003062 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 488221003063 active site 488221003064 homodimer interface [polypeptide binding]; other site 488221003065 catalytic site [active] 488221003066 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488221003067 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221003068 non-specific DNA binding site [nucleotide binding]; other site 488221003069 salt bridge; other site 488221003070 sequence-specific DNA binding site [nucleotide binding]; other site 488221003071 Zeta toxin; Region: Zeta_toxin; pfam06414 488221003072 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 488221003073 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 488221003074 AAA domain; Region: AAA_21; pfam13304 488221003075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221003076 ABC transporter signature motif; other site 488221003077 Walker B; other site 488221003078 D-loop; other site 488221003079 H-loop/switch region; other site 488221003080 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 488221003081 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 488221003082 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 488221003083 ATP-grasp domain; Region: ATP-grasp_4; cl17255 488221003084 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221003085 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221003086 Coenzyme A binding pocket [chemical binding]; other site 488221003087 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 488221003088 conserved cys residue [active] 488221003089 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 488221003090 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 488221003091 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 488221003092 T-box leader; cis-reg00001 488221003093 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 488221003094 zinc binding site [ion binding]; other site 488221003095 putative ligand binding site [chemical binding]; other site 488221003096 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 488221003097 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 488221003098 TM-ABC transporter signature motif; other site 488221003099 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 488221003100 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221003101 Walker A/P-loop; other site 488221003102 ATP binding site [chemical binding]; other site 488221003103 Q-loop/lid; other site 488221003104 ABC transporter signature motif; other site 488221003105 Walker B; other site 488221003106 D-loop; other site 488221003107 H-loop/switch region; other site 488221003108 DNA primase; Validated; Region: dnaG; PRK05667 488221003109 CHC2 zinc finger; Region: zf-CHC2; pfam01807 488221003110 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 488221003111 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 488221003112 active site 488221003113 metal binding site [ion binding]; metal-binding site 488221003114 interdomain interaction site; other site 488221003115 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 488221003116 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 488221003117 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 488221003118 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 488221003119 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 488221003120 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 488221003121 DNA binding residues [nucleotide binding] 488221003122 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 488221003123 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488221003124 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 488221003125 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488221003126 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 488221003127 putative ADP-binding pocket [chemical binding]; other site 488221003128 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 488221003129 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 488221003130 GTPase CgtA; Reviewed; Region: obgE; PRK12297 488221003131 GTP1/OBG; Region: GTP1_OBG; pfam01018 488221003132 Obg GTPase; Region: Obg; cd01898 488221003133 G1 box; other site 488221003134 GTP/Mg2+ binding site [chemical binding]; other site 488221003135 Switch I region; other site 488221003136 G2 box; other site 488221003137 G3 box; other site 488221003138 Switch II region; other site 488221003139 G4 box; other site 488221003140 G5 box; other site 488221003141 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 488221003142 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 488221003143 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 488221003144 hinge; other site 488221003145 active site 488221003146 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 488221003147 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 488221003148 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 488221003149 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488221003150 DNA-binding site [nucleotide binding]; DNA binding site 488221003151 DRTGG domain; Region: DRTGG; pfam07085 488221003152 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 488221003153 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 488221003154 active site 2 [active] 488221003155 active site 1 [active] 488221003156 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 488221003157 active site 488221003158 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221003159 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 488221003160 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221003161 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 488221003162 Part of AAA domain; Region: AAA_19; pfam13245 488221003163 Family description; Region: UvrD_C_2; pfam13538 488221003164 hypothetical protein; Reviewed; Region: PRK00024 488221003165 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 488221003166 MPN+ (JAMM) motif; other site 488221003167 Zinc-binding site [ion binding]; other site 488221003168 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 488221003169 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 488221003170 catalytic triad [active] 488221003171 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 488221003172 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 488221003173 CoA binding domain; Region: CoA_binding; pfam02629 488221003174 Putative amino acid metabolism; Region: DUF1831; pfam08866 488221003175 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 488221003176 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 488221003177 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488221003178 catalytic residue [active] 488221003179 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 488221003180 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 488221003181 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488221003182 active site 488221003183 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 488221003184 putative active site [active] 488221003185 putative metal binding residues [ion binding]; other site 488221003186 signature motif; other site 488221003187 putative triphosphate binding site [ion binding]; other site 488221003188 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 488221003189 synthetase active site [active] 488221003190 NTP binding site [chemical binding]; other site 488221003191 metal binding site [ion binding]; metal-binding site 488221003192 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 488221003193 ATP-NAD kinase; Region: NAD_kinase; pfam01513 488221003194 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 488221003195 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 488221003196 RNA binding surface [nucleotide binding]; other site 488221003197 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 488221003198 active site 488221003199 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 488221003200 hypothetical protein; Validated; Region: PRK00153 488221003201 Predicted membrane protein [Function unknown]; Region: COG3619 488221003202 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 488221003203 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 488221003204 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 488221003205 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 488221003206 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 488221003207 active site 488221003208 Riboflavin kinase; Region: Flavokinase; smart00904 488221003209 Uncharacterized conserved protein [Function unknown]; Region: COG1284 488221003210 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 488221003211 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 488221003212 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 488221003213 EDD domain protein, DegV family; Region: DegV; TIGR00762 488221003214 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 488221003215 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 488221003216 IHF dimer interface [polypeptide binding]; other site 488221003217 IHF - DNA interface [nucleotide binding]; other site 488221003218 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 488221003219 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221003220 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221003221 ABC transporter; Region: ABC_tran_2; pfam12848 488221003222 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221003223 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221003224 non-specific DNA binding site [nucleotide binding]; other site 488221003225 salt bridge; other site 488221003226 sequence-specific DNA binding site [nucleotide binding]; other site 488221003227 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 488221003228 H+ Antiporter protein; Region: 2A0121; TIGR00900 488221003229 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 488221003230 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 488221003231 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 488221003232 nucleotide binding pocket [chemical binding]; other site 488221003233 K-X-D-G motif; other site 488221003234 catalytic site [active] 488221003235 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 488221003236 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 488221003237 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 488221003238 Dimer interface [polypeptide binding]; other site 488221003239 BRCT sequence motif; other site 488221003240 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 488221003241 pullulanase, type I; Region: pulA_typeI; TIGR02104 488221003242 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 488221003243 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 488221003244 Ca binding site [ion binding]; other site 488221003245 active site 488221003246 catalytic site [active] 488221003247 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 488221003248 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 488221003249 tetrameric interface [polypeptide binding]; other site 488221003250 activator binding site; other site 488221003251 NADP binding site [chemical binding]; other site 488221003252 substrate binding site [chemical binding]; other site 488221003253 catalytic residues [active] 488221003254 glycogen branching enzyme; Provisional; Region: PRK12313 488221003255 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 488221003256 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 488221003257 active site 488221003258 catalytic site [active] 488221003259 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 488221003260 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 488221003261 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 488221003262 ligand binding site; other site 488221003263 oligomer interface; other site 488221003264 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 488221003265 dimer interface [polypeptide binding]; other site 488221003266 N-terminal domain interface [polypeptide binding]; other site 488221003267 sulfate 1 binding site; other site 488221003268 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 488221003269 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 488221003270 active site 488221003271 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 488221003272 dimer interface [polypeptide binding]; other site 488221003273 N-terminal domain interface [polypeptide binding]; other site 488221003274 sulfate 1 binding site; other site 488221003275 glycogen synthase; Provisional; Region: glgA; PRK00654 488221003276 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 488221003277 ADP-binding pocket [chemical binding]; other site 488221003278 homodimer interface [polypeptide binding]; other site 488221003279 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 488221003280 Uncharacterized conserved protein [Function unknown]; Region: COG5506 488221003281 enolase; Provisional; Region: eno; PRK00077 488221003282 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 488221003283 dimer interface [polypeptide binding]; other site 488221003284 metal binding site [ion binding]; metal-binding site 488221003285 substrate binding pocket [chemical binding]; other site 488221003286 Transposase; Region: HTH_Tnp_IS630; pfam01710 488221003287 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221003288 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 488221003289 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 488221003290 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 488221003291 Part of AAA domain; Region: AAA_19; pfam13245 488221003292 Family description; Region: UvrD_C_2; pfam13538 488221003293 Family description; Region: UvrD_C_2; pfam13538 488221003294 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 488221003295 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 488221003296 G5 domain; Region: G5; pfam07501 488221003297 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 488221003298 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 488221003299 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 488221003300 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 488221003301 GTP/Mg2+ binding site [chemical binding]; other site 488221003302 G4 box; other site 488221003303 G5 box; other site 488221003304 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 488221003305 G1 box; other site 488221003306 G1 box; other site 488221003307 GTP/Mg2+ binding site [chemical binding]; other site 488221003308 Switch I region; other site 488221003309 G2 box; other site 488221003310 G2 box; other site 488221003311 G3 box; other site 488221003312 G3 box; other site 488221003313 Switch II region; other site 488221003314 Switch II region; other site 488221003315 G5 box; other site 488221003316 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 488221003317 RNA/DNA hybrid binding site [nucleotide binding]; other site 488221003318 active site 488221003319 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 488221003320 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 488221003321 Cl- selectivity filter; other site 488221003322 Cl- binding residues [ion binding]; other site 488221003323 pore gating glutamate residue; other site 488221003324 dimer interface [polypeptide binding]; other site 488221003325 H+/Cl- coupling transport residue; other site 488221003326 TrkA-C domain; Region: TrkA_C; pfam02080 488221003327 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 488221003328 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 488221003329 active site 488221003330 DNA binding site [nucleotide binding] 488221003331 Int/Topo IB signature motif; other site 488221003332 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 488221003333 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 488221003334 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 488221003335 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 488221003336 E3 interaction surface; other site 488221003337 lipoyl attachment site [posttranslational modification]; other site 488221003338 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 488221003339 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 488221003340 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488221003341 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 488221003342 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 488221003343 e3 binding domain; Region: E3_binding; pfam02817 488221003344 e3 binding domain; Region: E3_binding; pfam02817 488221003345 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 488221003346 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 488221003347 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 488221003348 alpha subunit interface [polypeptide binding]; other site 488221003349 TPP binding site [chemical binding]; other site 488221003350 heterodimer interface [polypeptide binding]; other site 488221003351 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 488221003352 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 488221003353 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 488221003354 tetramer interface [polypeptide binding]; other site 488221003355 TPP-binding site [chemical binding]; other site 488221003356 heterodimer interface [polypeptide binding]; other site 488221003357 phosphorylation loop region [posttranslational modification] 488221003358 multidrug efflux protein; Reviewed; Region: PRK01766 488221003359 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 488221003360 cation binding site [ion binding]; other site 488221003361 dihydroorotase; Validated; Region: pyrC; PRK09357 488221003362 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 488221003363 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 488221003364 active site 488221003365 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 488221003366 putative active site [active] 488221003367 nucleotide binding site [chemical binding]; other site 488221003368 nudix motif; other site 488221003369 putative metal binding site [ion binding]; other site 488221003370 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 488221003371 ligand binding site [chemical binding]; other site 488221003372 active site 488221003373 UGI interface [polypeptide binding]; other site 488221003374 catalytic site [active] 488221003375 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 488221003376 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 488221003377 motif II; other site 488221003378 FRG domain; Region: FRG; pfam08867 488221003379 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 488221003380 PLD-like domain; Region: PLDc_2; pfam13091 488221003381 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 488221003382 putative active site [active] 488221003383 catalytic site [active] 488221003384 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 488221003385 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221003386 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221003387 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221003388 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 488221003389 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221003390 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221003391 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 488221003392 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 488221003393 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 488221003394 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 488221003395 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 488221003396 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 488221003397 dimerization domain swap beta strand [polypeptide binding]; other site 488221003398 regulatory protein interface [polypeptide binding]; other site 488221003399 active site 488221003400 regulatory phosphorylation site [posttranslational modification]; other site 488221003401 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 488221003402 catalytic residues [active] 488221003403 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 488221003404 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 488221003405 Class I ribonucleotide reductase; Region: RNR_I; cd01679 488221003406 active site 488221003407 dimer interface [polypeptide binding]; other site 488221003408 catalytic residues [active] 488221003409 effector binding site; other site 488221003410 R2 peptide binding site; other site 488221003411 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 488221003412 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 488221003413 dimer interface [polypeptide binding]; other site 488221003414 putative radical transfer pathway; other site 488221003415 diiron center [ion binding]; other site 488221003416 tyrosyl radical; other site 488221003417 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 488221003418 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 488221003419 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 488221003420 Protein of unknown function (DUF3884); Region: DUF3884; pfam13024 488221003421 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 488221003422 beta-galactosidase; Region: BGL; TIGR03356 488221003423 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 488221003424 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 488221003425 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 488221003426 active site 488221003427 P-loop; other site 488221003428 phosphorylation site [posttranslational modification] 488221003429 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 488221003430 methionine cluster; other site 488221003431 active site 488221003432 phosphorylation site [posttranslational modification] 488221003433 metal binding site [ion binding]; metal-binding site 488221003434 CAT RNA binding domain; Region: CAT_RBD; smart01061 488221003435 transcriptional antiterminator BglG; Provisional; Region: PRK09772 488221003436 PRD domain; Region: PRD; pfam00874 488221003437 PRD domain; Region: PRD; pfam00874 488221003438 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 488221003439 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 488221003440 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 488221003441 putative substrate binding site [chemical binding]; other site 488221003442 putative ATP binding site [chemical binding]; other site 488221003443 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 488221003444 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 488221003445 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 488221003446 catalytic residues [active] 488221003447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 488221003448 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221003449 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 488221003450 active site 488221003451 P-loop; other site 488221003452 phosphorylation site [posttranslational modification] 488221003453 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 488221003454 active site 488221003455 phosphorylation site [posttranslational modification] 488221003456 GTP-binding protein LepA; Provisional; Region: PRK05433 488221003457 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 488221003458 G1 box; other site 488221003459 putative GEF interaction site [polypeptide binding]; other site 488221003460 GTP/Mg2+ binding site [chemical binding]; other site 488221003461 Switch I region; other site 488221003462 G2 box; other site 488221003463 G3 box; other site 488221003464 Switch II region; other site 488221003465 G4 box; other site 488221003466 G5 box; other site 488221003467 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 488221003468 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 488221003469 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 488221003470 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 488221003471 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 488221003472 active site 488221003473 metal binding site [ion binding]; metal-binding site 488221003474 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 488221003475 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 488221003476 Walker A/P-loop; other site 488221003477 ATP binding site [chemical binding]; other site 488221003478 Q-loop/lid; other site 488221003479 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 488221003480 ABC transporter signature motif; other site 488221003481 Walker B; other site 488221003482 D-loop; other site 488221003483 H-loop/switch region; other site 488221003484 Arginine repressor [Transcription]; Region: ArgR; COG1438 488221003485 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 488221003486 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 488221003487 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 488221003488 S4 RNA-binding domain; Region: S4; smart00363 488221003489 RNA binding surface [nucleotide binding]; other site 488221003490 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 488221003491 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 488221003492 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 488221003493 substrate binding pocket [chemical binding]; other site 488221003494 chain length determination region; other site 488221003495 substrate-Mg2+ binding site; other site 488221003496 catalytic residues [active] 488221003497 aspartate-rich region 1; other site 488221003498 active site lid residues [active] 488221003499 aspartate-rich region 2; other site 488221003500 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 488221003501 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 488221003502 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 488221003503 generic binding surface II; other site 488221003504 generic binding surface I; other site 488221003505 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 488221003506 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 488221003507 Sugar specificity; other site 488221003508 Pyrimidine base specificity; other site 488221003509 ATP-binding site [chemical binding]; other site 488221003510 Enterocin A Immunity; Region: EntA_Immun; pfam08951 488221003511 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 488221003512 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 488221003513 RNA binding site [nucleotide binding]; other site 488221003514 active site 488221003515 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 488221003516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 488221003517 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 488221003518 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 488221003519 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 488221003520 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 488221003521 catalytic residue [active] 488221003522 Dppa2/4 conserved region; Region: DCR; pfam14047 488221003523 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 488221003524 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 488221003525 active site 488221003526 catalytic site [active] 488221003527 DNA gyrase subunit A; Validated; Region: PRK05560 488221003528 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 488221003529 CAP-like domain; other site 488221003530 active site 488221003531 primary dimer interface [polypeptide binding]; other site 488221003532 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488221003533 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488221003534 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488221003535 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488221003536 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488221003537 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 488221003538 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 488221003539 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 488221003540 tetramer (dimer of dimers) interface [polypeptide binding]; other site 488221003541 NAD binding site [chemical binding]; other site 488221003542 dimer interface [polypeptide binding]; other site 488221003543 substrate binding site [chemical binding]; other site 488221003544 Ion channel; Region: Ion_trans_2; pfam07885 488221003545 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 488221003546 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 488221003547 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 488221003548 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 488221003549 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 488221003550 putative active site [active] 488221003551 heme pocket [chemical binding]; other site 488221003552 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 488221003553 dimer interface [polypeptide binding]; other site 488221003554 phosphorylation site [posttranslational modification] 488221003555 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 488221003556 ATP binding site [chemical binding]; other site 488221003557 Mg2+ binding site [ion binding]; other site 488221003558 G-X-G motif; other site 488221003559 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488221003560 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 488221003561 active site 488221003562 phosphorylation site [posttranslational modification] 488221003563 intermolecular recognition site; other site 488221003564 dimerization interface [polypeptide binding]; other site 488221003565 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 488221003566 DNA binding site [nucleotide binding] 488221003567 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 488221003568 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 488221003569 minor groove reading motif; other site 488221003570 helix-hairpin-helix signature motif; other site 488221003571 substrate binding pocket [chemical binding]; other site 488221003572 active site 488221003573 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 488221003574 DNA binding and oxoG recognition site [nucleotide binding] 488221003575 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 488221003576 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 488221003577 Potassium binding sites [ion binding]; other site 488221003578 Cesium cation binding sites [ion binding]; other site 488221003579 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 488221003580 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 488221003581 Flavoprotein; Region: Flavoprotein; pfam02441 488221003582 Predicted membrane protein [Function unknown]; Region: COG4684 488221003583 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 488221003584 HTH domain; Region: HTH_11; pfam08279 488221003585 3H domain; Region: 3H; pfam02829 488221003586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 488221003587 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 488221003588 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 488221003589 DDE superfamily endonuclease; Region: DDE_3; pfam13358 488221003590 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 488221003591 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 488221003592 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 488221003593 dimer interface [polypeptide binding]; other site 488221003594 phosphorylation site [posttranslational modification] 488221003595 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 488221003596 ATP binding site [chemical binding]; other site 488221003597 G-X-G motif; other site 488221003598 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488221003599 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 488221003600 active site 488221003601 phosphorylation site [posttranslational modification] 488221003602 intermolecular recognition site; other site 488221003603 dimerization interface [polypeptide binding]; other site 488221003604 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 488221003605 DNA binding site [nucleotide binding] 488221003606 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 488221003607 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221003608 Walker A/P-loop; other site 488221003609 ATP binding site [chemical binding]; other site 488221003610 Q-loop/lid; other site 488221003611 ABC transporter signature motif; other site 488221003612 Walker B; other site 488221003613 D-loop; other site 488221003614 H-loop/switch region; other site 488221003615 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 488221003616 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 488221003617 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221003618 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221003619 Walker A/P-loop; other site 488221003620 ATP binding site [chemical binding]; other site 488221003621 Q-loop/lid; other site 488221003622 ABC transporter signature motif; other site 488221003623 Walker B; other site 488221003624 D-loop; other site 488221003625 H-loop/switch region; other site 488221003626 Asparagine synthase; Region: Asn_synthase; pfam00733 488221003627 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 488221003628 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 488221003629 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221003630 Coenzyme A binding pocket [chemical binding]; other site 488221003631 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 488221003632 excinuclease ABC subunit B; Provisional; Region: PRK05298 488221003633 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 488221003634 ATP binding site [chemical binding]; other site 488221003635 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 488221003636 nucleotide binding region [chemical binding]; other site 488221003637 ATP-binding site [chemical binding]; other site 488221003638 Ultra-violet resistance protein B; Region: UvrB; pfam12344 488221003639 UvrB/uvrC motif; Region: UVR; pfam02151 488221003640 CAAX protease self-immunity; Region: Abi; pfam02517 488221003641 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 488221003642 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488221003643 substrate binding pocket [chemical binding]; other site 488221003644 membrane-bound complex binding site; other site 488221003645 hinge residues; other site 488221003646 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 488221003647 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488221003648 substrate binding pocket [chemical binding]; other site 488221003649 membrane-bound complex binding site; other site 488221003650 hinge residues; other site 488221003651 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221003652 dimer interface [polypeptide binding]; other site 488221003653 conserved gate region; other site 488221003654 putative PBP binding loops; other site 488221003655 ABC-ATPase subunit interface; other site 488221003656 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488221003657 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 488221003658 Walker A/P-loop; other site 488221003659 ATP binding site [chemical binding]; other site 488221003660 Q-loop/lid; other site 488221003661 ABC transporter signature motif; other site 488221003662 Walker B; other site 488221003663 D-loop; other site 488221003664 H-loop/switch region; other site 488221003665 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 488221003666 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 488221003667 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 488221003668 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 488221003669 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 488221003670 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 488221003671 P loop; other site 488221003672 GTP binding site [chemical binding]; other site 488221003673 sugar phosphate phosphatase; Provisional; Region: PRK10513 488221003674 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 488221003675 motif II; other site 488221003676 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 488221003677 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 488221003678 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 488221003679 active site 488221003680 motif I; other site 488221003681 motif II; other site 488221003682 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 488221003683 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 488221003684 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 488221003685 Walker A/P-loop; other site 488221003686 ATP binding site [chemical binding]; other site 488221003687 Q-loop/lid; other site 488221003688 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 488221003689 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 488221003690 ABC transporter signature motif; other site 488221003691 Walker B; other site 488221003692 D-loop; other site 488221003693 H-loop/switch region; other site 488221003694 ribonuclease III; Reviewed; Region: rnc; PRK00102 488221003695 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 488221003696 dimerization interface [polypeptide binding]; other site 488221003697 active site 488221003698 metal binding site [ion binding]; metal-binding site 488221003699 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 488221003700 dsRNA binding site [nucleotide binding]; other site 488221003701 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 488221003702 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 488221003703 active site 488221003704 McrBC 5-methylcytosine restriction system component [Defense mechanisms]; Region: McrC; COG4268 488221003705 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 488221003706 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221003707 Walker A motif; other site 488221003708 ATP binding site [chemical binding]; other site 488221003709 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 488221003710 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 488221003711 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 488221003712 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 488221003713 substrate binding site [chemical binding]; other site 488221003714 Predicted membrane protein [Function unknown]; Region: COG3326 488221003715 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 488221003716 tartrate dehydrogenase; Region: TTC; TIGR02089 488221003717 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 488221003718 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 488221003719 metal binding site [ion binding]; metal-binding site 488221003720 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 488221003721 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 488221003722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 488221003723 DNA topoisomerase I; Validated; Region: PRK05582 488221003724 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 488221003725 active site 488221003726 interdomain interaction site; other site 488221003727 putative metal-binding site [ion binding]; other site 488221003728 nucleotide binding site [chemical binding]; other site 488221003729 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 488221003730 domain I; other site 488221003731 DNA binding groove [nucleotide binding] 488221003732 phosphate binding site [ion binding]; other site 488221003733 domain II; other site 488221003734 domain III; other site 488221003735 nucleotide binding site [chemical binding]; other site 488221003736 catalytic site [active] 488221003737 domain IV; other site 488221003738 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 488221003739 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 488221003740 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 488221003741 Predicted membrane protein [Function unknown]; Region: COG1808 488221003742 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 488221003743 DNA protecting protein DprA; Region: dprA; TIGR00732 488221003744 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 488221003745 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 488221003746 active site 488221003747 metal-binding site 488221003748 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 488221003749 Phosphotransferase enzyme family; Region: APH; pfam01636 488221003750 active site 488221003751 substrate binding site [chemical binding]; other site 488221003752 ATP binding site [chemical binding]; other site 488221003753 dimer interface [polypeptide binding]; other site 488221003754 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 488221003755 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 488221003756 putative NAD(P) binding site [chemical binding]; other site 488221003757 putative catalytic Zn binding site [ion binding]; other site 488221003758 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 488221003759 substrate binding site; other site 488221003760 dimer interface; other site 488221003761 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 488221003762 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 488221003763 LicD family; Region: LicD; cl01378 488221003764 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 488221003765 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 488221003766 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 488221003767 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 488221003768 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 488221003769 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 488221003770 ATP-grasp domain; Region: ATP-grasp_4; cl17255 488221003771 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 488221003772 IMP binding site; other site 488221003773 dimer interface [polypeptide binding]; other site 488221003774 interdomain contacts; other site 488221003775 partial ornithine binding site; other site 488221003776 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 488221003777 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 488221003778 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 488221003779 catalytic site [active] 488221003780 subunit interface [polypeptide binding]; other site 488221003781 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 488221003782 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 488221003783 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 488221003784 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 488221003785 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488221003786 active site 488221003787 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 488221003788 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 488221003789 minor groove reading motif; other site 488221003790 helix-hairpin-helix signature motif; other site 488221003791 substrate binding pocket [chemical binding]; other site 488221003792 active site 488221003793 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 488221003794 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 488221003795 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221003796 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221003797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221003798 Transposase; Region: DDE_Tnp_ISL3; pfam01610 488221003799 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 488221003800 Transposase; Region: DDE_Tnp_ISL3; pfam01610 488221003801 heat shock protein HtpX; Provisional; Region: PRK04897 488221003802 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 488221003803 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 488221003804 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 488221003805 S-adenosylmethionine binding site [chemical binding]; other site 488221003806 uracil transporter; Provisional; Region: PRK10720 488221003807 signal recognition particle protein; Provisional; Region: PRK10867 488221003808 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 488221003809 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 488221003810 P loop; other site 488221003811 GTP binding site [chemical binding]; other site 488221003812 Signal peptide binding domain; Region: SRP_SPB; pfam02978 488221003813 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 488221003814 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 488221003815 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 488221003816 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 488221003817 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 488221003818 Zn2+ binding site [ion binding]; other site 488221003819 Mg2+ binding site [ion binding]; other site 488221003820 sugar phosphate phosphatase; Provisional; Region: PRK10513 488221003821 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 488221003822 active site 488221003823 motif I; other site 488221003824 motif II; other site 488221003825 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 488221003826 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 488221003827 camphor resistance protein CrcB; Provisional; Region: PRK14229 488221003828 camphor resistance protein CrcB; Provisional; Region: PRK14221 488221003829 hypothetical protein; Provisional; Region: PRK07248 488221003830 flavodoxin; Validated; Region: PRK07308 488221003831 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 488221003832 DHH family; Region: DHH; pfam01368 488221003833 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 488221003834 Winged helix-turn helix; Region: HTH_29; pfam13551 488221003835 Homeodomain-like domain; Region: HTH_23; pfam13384 488221003836 Homeodomain-like domain; Region: HTH_32; pfam13565 488221003837 glutamate dehydrogenase; Provisional; Region: PRK09414 488221003838 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 488221003839 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 488221003840 NAD(P) binding site [chemical binding]; other site 488221003841 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 488221003842 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221003843 Walker A/P-loop; other site 488221003844 ATP binding site [chemical binding]; other site 488221003845 Q-loop/lid; other site 488221003846 ABC transporter signature motif; other site 488221003847 Walker B; other site 488221003848 D-loop; other site 488221003849 H-loop/switch region; other site 488221003850 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 488221003851 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 488221003852 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 488221003853 Class I aldolases; Region: Aldolase_Class_I; cl17187 488221003854 catalytic residue [active] 488221003855 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 488221003856 active site 488221003857 catalytic motif [active] 488221003858 Zn binding site [ion binding]; other site 488221003859 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 488221003860 tetramer interfaces [polypeptide binding]; other site 488221003861 binuclear metal-binding site [ion binding]; other site 488221003862 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 488221003863 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 488221003864 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 488221003865 ABC transporter signature motif; other site 488221003866 Walker B; other site 488221003867 D-loop; other site 488221003868 H-loop/switch region; other site 488221003869 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 488221003870 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 488221003871 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 488221003872 Walker A/P-loop; other site 488221003873 ATP binding site [chemical binding]; other site 488221003874 Q-loop/lid; other site 488221003875 ABC transporter signature motif; other site 488221003876 Walker B; other site 488221003877 D-loop; other site 488221003878 H-loop/switch region; other site 488221003879 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 488221003880 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 488221003881 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 488221003882 Walker A/P-loop; other site 488221003883 ATP binding site [chemical binding]; other site 488221003884 Q-loop/lid; other site 488221003885 ABC transporter signature motif; other site 488221003886 Walker B; other site 488221003887 D-loop; other site 488221003888 H-loop/switch region; other site 488221003889 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 488221003890 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221003891 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 488221003892 Walker A/P-loop; other site 488221003893 ATP binding site [chemical binding]; other site 488221003894 Q-loop/lid; other site 488221003895 ABC transporter signature motif; other site 488221003896 Walker B; other site 488221003897 D-loop; other site 488221003898 H-loop/switch region; other site 488221003899 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 488221003900 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 488221003901 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 488221003902 active site 488221003903 ATP binding site [chemical binding]; other site 488221003904 Lanthionine synthetase C-like domain associated with serine threonine kinases. Some members of this subgroup lack the zinc binding site and the active site residues, and therefore are most likely inactive. The function of this domain is unknown; Region: LanC_SerThrkinase; cd04791 488221003905 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 488221003906 active site 488221003907 zinc binding site [ion binding]; other site 488221003908 CAAX protease self-immunity; Region: Abi; pfam02517 488221003909 Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]; Region: ArsC; COG1393 488221003910 ArsC family; Region: ArsC; pfam03960 488221003911 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 488221003912 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 488221003913 core dimer interface [polypeptide binding]; other site 488221003914 L10 interface [polypeptide binding]; other site 488221003915 L11 interface [polypeptide binding]; other site 488221003916 putative EF-Tu interaction site [polypeptide binding]; other site 488221003917 putative EF-G interaction site [polypeptide binding]; other site 488221003918 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 488221003919 23S rRNA interface [nucleotide binding]; other site 488221003920 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 488221003921 chlorohydrolase; Validated; Region: PRK06687 488221003922 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 488221003923 active site 488221003924 putative substrate binding pocket [chemical binding]; other site 488221003925 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 488221003926 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221003927 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 488221003928 Walker A/P-loop; other site 488221003929 ATP binding site [chemical binding]; other site 488221003930 Q-loop/lid; other site 488221003931 ABC transporter signature motif; other site 488221003932 Walker B; other site 488221003933 D-loop; other site 488221003934 H-loop/switch region; other site 488221003935 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 488221003936 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221003937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221003938 Walker A/P-loop; other site 488221003939 ATP binding site [chemical binding]; other site 488221003940 Q-loop/lid; other site 488221003941 ABC transporter signature motif; other site 488221003942 Walker B; other site 488221003943 D-loop; other site 488221003944 H-loop/switch region; other site 488221003945 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 488221003946 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 488221003947 SelR domain; Region: SelR; pfam01641 488221003948 homoserine kinase; Provisional; Region: PRK01212 488221003949 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 488221003950 homoserine dehydrogenase; Provisional; Region: PRK06349 488221003951 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 488221003952 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 488221003953 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 488221003954 adaptor protein; Provisional; Region: PRK02315 488221003955 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 488221003956 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 488221003957 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 488221003958 active site 488221003959 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 488221003960 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 488221003961 putative ADP-binding pocket [chemical binding]; other site 488221003962 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 488221003963 Transcriptional regulator [Transcription]; Region: LytR; COG1316 488221003964 prephenate dehydratase; Provisional; Region: PRK11898 488221003965 Prephenate dehydratase; Region: PDT; pfam00800 488221003966 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 488221003967 putative L-Phe binding site [chemical binding]; other site 488221003968 shikimate kinase; Reviewed; Region: aroK; PRK00131 488221003969 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 488221003970 ADP binding site [chemical binding]; other site 488221003971 magnesium binding site [ion binding]; other site 488221003972 putative shikimate binding site; other site 488221003973 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 488221003974 Enol pyruvate transferases family includes EPSP synthases and UDP-N-acetylglucosamine enolpyruvyl transferase. Both enzymes catalyze the reaction of enolpyruvyl transfer; Region: EPT-like; cd01554 488221003975 hinge; other site 488221003976 active site 488221003977 hypothetical protein; Provisional; Region: PRK13676 488221003978 prephenate dehydrogenase; Validated; Region: PRK06545 488221003979 prephenate dehydrogenase; Validated; Region: PRK08507 488221003980 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 488221003981 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 488221003982 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 488221003983 Tetramer interface [polypeptide binding]; other site 488221003984 active site 488221003985 FMN-binding site [chemical binding]; other site 488221003986 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 488221003987 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 488221003988 active site 488221003989 dimer interface [polypeptide binding]; other site 488221003990 metal binding site [ion binding]; metal-binding site 488221003991 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 488221003992 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 488221003993 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 488221003994 shikimate binding site; other site 488221003995 NAD(P) binding site [chemical binding]; other site 488221003996 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 488221003997 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 488221003998 active site 488221003999 catalytic residue [active] 488221004000 dimer interface [polypeptide binding]; other site 488221004001 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 488221004002 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 488221004003 putative RNA binding site [nucleotide binding]; other site 488221004004 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 488221004005 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 488221004006 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 488221004007 Walker A/P-loop; other site 488221004008 ATP binding site [chemical binding]; other site 488221004009 Q-loop/lid; other site 488221004010 ABC transporter signature motif; other site 488221004011 Walker B; other site 488221004012 D-loop; other site 488221004013 H-loop/switch region; other site 488221004014 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 488221004015 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 488221004016 active site 488221004017 Na/Ca binding site [ion binding]; other site 488221004018 catalytic site [active] 488221004019 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 488221004020 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 488221004021 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 488221004022 motif 1; other site 488221004023 active site 488221004024 motif 2; other site 488221004025 motif 3; other site 488221004026 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 488221004027 DHHA1 domain; Region: DHHA1; pfam02272 488221004028 Uncharacterized conserved protein [Function unknown]; Region: COG4894 488221004029 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 488221004030 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 488221004031 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 488221004032 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221004033 dimer interface [polypeptide binding]; other site 488221004034 conserved gate region; other site 488221004035 putative PBP binding loops; other site 488221004036 ABC-ATPase subunit interface; other site 488221004037 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221004038 dimer interface [polypeptide binding]; other site 488221004039 conserved gate region; other site 488221004040 putative PBP binding loops; other site 488221004041 ABC-ATPase subunit interface; other site 488221004042 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 488221004043 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 488221004044 Walker A/P-loop; other site 488221004045 ATP binding site [chemical binding]; other site 488221004046 Q-loop/lid; other site 488221004047 ABC transporter signature motif; other site 488221004048 Walker B; other site 488221004049 D-loop; other site 488221004050 H-loop/switch region; other site 488221004051 TOBE domain; Region: TOBE_2; pfam08402 488221004052 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 488221004053 FAD binding domain; Region: FAD_binding_4; pfam01565 488221004054 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 488221004055 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 488221004056 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 488221004057 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488221004058 DNA-binding site [nucleotide binding]; DNA binding site 488221004059 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 488221004060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221004061 homodimer interface [polypeptide binding]; other site 488221004062 catalytic residue [active] 488221004063 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 488221004064 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488221004065 substrate binding pocket [chemical binding]; other site 488221004066 membrane-bound complex binding site; other site 488221004067 hinge residues; other site 488221004068 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 488221004069 PhoU domain; Region: PhoU; pfam01895 488221004070 PhoU domain; Region: PhoU; pfam01895 488221004071 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 488221004072 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 488221004073 Walker A/P-loop; other site 488221004074 ATP binding site [chemical binding]; other site 488221004075 Q-loop/lid; other site 488221004076 ABC transporter signature motif; other site 488221004077 Walker B; other site 488221004078 D-loop; other site 488221004079 H-loop/switch region; other site 488221004080 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 488221004081 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 488221004082 Walker A/P-loop; other site 488221004083 ATP binding site [chemical binding]; other site 488221004084 Q-loop/lid; other site 488221004085 ABC transporter signature motif; other site 488221004086 Walker B; other site 488221004087 D-loop; other site 488221004088 H-loop/switch region; other site 488221004089 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 488221004090 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221004091 dimer interface [polypeptide binding]; other site 488221004092 conserved gate region; other site 488221004093 putative PBP binding loops; other site 488221004094 ABC-ATPase subunit interface; other site 488221004095 sulfate transport protein; Provisional; Region: cysT; CHL00187 488221004096 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221004097 dimer interface [polypeptide binding]; other site 488221004098 conserved gate region; other site 488221004099 putative PBP binding loops; other site 488221004100 ABC-ATPase subunit interface; other site 488221004101 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 488221004102 phosphate binding protein; Region: ptsS_2; TIGR02136 488221004103 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 488221004104 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 488221004105 S-adenosylmethionine binding site [chemical binding]; other site 488221004106 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 488221004107 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 488221004108 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 488221004109 active site 488221004110 hypothetical protein; Provisional; Region: PRK04387 488221004111 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 488221004112 ArsC family; Region: ArsC; pfam03960 488221004113 putative catalytic residues [active] 488221004114 thiol/disulfide switch; other site 488221004115 Predicted membrane protein [Function unknown]; Region: COG4478 488221004116 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 488221004117 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 488221004118 active site 488221004119 motif I; other site 488221004120 motif II; other site 488221004121 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 488221004122 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 488221004123 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 488221004124 active site 488221004125 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 488221004126 active site 2 [active] 488221004127 active site 1 [active] 488221004128 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 488221004129 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 488221004130 FeS/SAM binding site; other site 488221004131 HemN C-terminal domain; Region: HemN_C; pfam06969 488221004132 YtxH-like protein; Region: YtxH; pfam12732 488221004133 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 488221004134 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 488221004135 HPr kinase/phosphorylase; Provisional; Region: PRK05428 488221004136 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 488221004137 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 488221004138 Hpr binding site; other site 488221004139 active site 488221004140 homohexamer subunit interaction site [polypeptide binding]; other site 488221004141 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 488221004142 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 488221004143 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 488221004144 active site 488221004145 trimer interface [polypeptide binding]; other site 488221004146 allosteric site; other site 488221004147 active site lid [active] 488221004148 hexamer (dimer of trimers) interface [polypeptide binding]; other site 488221004149 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 488221004150 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 488221004151 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221004152 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 488221004153 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221004154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 488221004155 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 488221004156 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 488221004157 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 488221004158 homodimer interface [polypeptide binding]; other site 488221004159 NAD binding pocket [chemical binding]; other site 488221004160 ATP binding pocket [chemical binding]; other site 488221004161 Mg binding site [ion binding]; other site 488221004162 active-site loop [active] 488221004163 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 488221004164 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, reaction...; Region: NAPRTase_A; cd01570 488221004165 active site 488221004166 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221004167 non-specific DNA binding site [nucleotide binding]; other site 488221004168 salt bridge; other site 488221004169 sequence-specific DNA binding site [nucleotide binding]; other site 488221004170 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221004171 ABC transporter signature motif; other site 488221004172 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 488221004173 Walker B; other site 488221004174 D-loop; other site 488221004175 H-loop/switch region; other site 488221004176 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221004177 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221004178 DDE superfamily endonuclease; Region: DDE_4; cl17710 488221004179 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221004180 Walker A/P-loop; other site 488221004181 ATP binding site [chemical binding]; other site 488221004182 Q-loop/lid; other site 488221004183 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 488221004184 Peptidase family U32; Region: Peptidase_U32; pfam01136 488221004185 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 488221004186 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 488221004187 Peptidase family U32; Region: Peptidase_U32; pfam01136 488221004188 ApaLI-like restriction endonuclease; Region: RE_ApaLI; pfam09499 488221004189 ApaLI-like restriction endonuclease; Region: RE_ApaLI; pfam09499 488221004190 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 488221004191 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 488221004192 S-adenosylmethionine binding site [chemical binding]; other site 488221004193 Helix-turn-helix domain; Region: HTH_18; pfam12833 488221004194 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 488221004195 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 488221004196 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221004197 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221004198 Walker A/P-loop; other site 488221004199 ATP binding site [chemical binding]; other site 488221004200 Q-loop/lid; other site 488221004201 ABC transporter signature motif; other site 488221004202 Walker B; other site 488221004203 D-loop; other site 488221004204 H-loop/switch region; other site 488221004205 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 488221004206 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221004207 Walker A/P-loop; other site 488221004208 ATP binding site [chemical binding]; other site 488221004209 Q-loop/lid; other site 488221004210 ABC transporter signature motif; other site 488221004211 Walker B; other site 488221004212 D-loop; other site 488221004213 H-loop/switch region; other site 488221004214 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 488221004215 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 488221004216 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 488221004217 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 488221004218 Walker A/P-loop; other site 488221004219 ATP binding site [chemical binding]; other site 488221004220 Q-loop/lid; other site 488221004221 ABC transporter signature motif; other site 488221004222 Walker B; other site 488221004223 D-loop; other site 488221004224 H-loop/switch region; other site 488221004225 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221004226 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 488221004227 Walker A/P-loop; other site 488221004228 ATP binding site [chemical binding]; other site 488221004229 Q-loop/lid; other site 488221004230 ABC transporter signature motif; other site 488221004231 Walker B; other site 488221004232 D-loop; other site 488221004233 H-loop/switch region; other site 488221004234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 488221004235 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 488221004236 GMP synthase; Reviewed; Region: guaA; PRK00074 488221004237 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 488221004238 AMP/PPi binding site [chemical binding]; other site 488221004239 candidate oxyanion hole; other site 488221004240 catalytic triad [active] 488221004241 potential glutamine specificity residues [chemical binding]; other site 488221004242 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 488221004243 ATP Binding subdomain [chemical binding]; other site 488221004244 Dimerization subdomain; other site 488221004245 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 488221004246 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488221004247 DNA-binding site [nucleotide binding]; DNA binding site 488221004248 UTRA domain; Region: UTRA; pfam07702 488221004249 EamA-like transporter family; Region: EamA; pfam00892 488221004250 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 488221004251 Beta-lactamase; Region: Beta-lactamase; pfam00144 488221004252 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 488221004253 active site 488221004254 catalytic triad [active] 488221004255 oxyanion hole [active] 488221004256 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 488221004257 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 488221004258 active site 488221004259 motif I; other site 488221004260 motif II; other site 488221004261 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 488221004262 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 488221004263 active site 488221004264 catalytic residues [active] 488221004265 metal binding site [ion binding]; metal-binding site 488221004266 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 488221004267 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 488221004268 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 488221004269 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 488221004270 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 488221004271 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488221004272 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 488221004273 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488221004274 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 488221004275 Walker A/P-loop; other site 488221004276 ATP binding site [chemical binding]; other site 488221004277 Q-loop/lid; other site 488221004278 ABC transporter signature motif; other site 488221004279 Walker B; other site 488221004280 D-loop; other site 488221004281 H-loop/switch region; other site 488221004282 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 488221004283 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221004284 ABC-ATPase subunit interface; other site 488221004285 putative PBP binding loops; other site 488221004286 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 488221004287 putative ArsC-like catalytic residues; other site 488221004288 putative TRX-like catalytic residues [active] 488221004289 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 488221004290 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 488221004291 DNA binding site [nucleotide binding] 488221004292 active site 488221004293 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 488221004294 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 488221004295 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 488221004296 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 488221004297 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 488221004298 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 488221004299 predicted active site [active] 488221004300 catalytic triad [active] 488221004301 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 488221004302 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 488221004303 active site 488221004304 multimer interface [polypeptide binding]; other site 488221004305 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 488221004306 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488221004307 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 488221004308 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 488221004309 ApbE family; Region: ApbE; pfam02424 488221004310 Predicted flavoprotein [General function prediction only]; Region: COG0431 488221004311 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 488221004312 Predicted flavoprotein [General function prediction only]; Region: COG0431 488221004313 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 488221004314 PAS domain; Region: PAS_10; pfam13596 488221004315 hypothetical protein; Provisional; Region: PRK02539 488221004316 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 488221004317 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 488221004318 DALR anticodon binding domain; Region: DALR_1; pfam05746 488221004319 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 488221004320 dimer interface [polypeptide binding]; other site 488221004321 motif 1; other site 488221004322 active site 488221004323 motif 2; other site 488221004324 motif 3; other site 488221004325 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 488221004326 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 488221004327 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 488221004328 active site 488221004329 catalytic tetrad [active] 488221004330 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 488221004331 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 488221004332 NodB motif; other site 488221004333 active site 488221004334 catalytic site [active] 488221004335 Zn binding site [ion binding]; other site 488221004336 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 488221004337 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 488221004338 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 488221004339 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 488221004340 DEAD-like helicases superfamily; Region: DEXDc; smart00487 488221004341 ATP binding site [chemical binding]; other site 488221004342 putative Mg++ binding site [ion binding]; other site 488221004343 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 488221004344 nucleotide binding region [chemical binding]; other site 488221004345 ATP-binding site [chemical binding]; other site 488221004346 DDE superfamily endonuclease; Region: DDE_3; pfam13358 488221004347 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 488221004348 Winged helix-turn helix; Region: HTH_33; pfam13592 488221004349 Homeodomain-like domain; Region: HTH_23; cl17451 488221004350 elongation factor Tu; Reviewed; Region: PRK00049 488221004351 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 488221004352 G1 box; other site 488221004353 GEF interaction site [polypeptide binding]; other site 488221004354 GTP/Mg2+ binding site [chemical binding]; other site 488221004355 Switch I region; other site 488221004356 G2 box; other site 488221004357 G3 box; other site 488221004358 Switch II region; other site 488221004359 G4 box; other site 488221004360 G5 box; other site 488221004361 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 488221004362 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 488221004363 Antibiotic Binding Site [chemical binding]; other site 488221004364 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221004365 DDE superfamily endonuclease; Region: DDE_4; cl17710 488221004366 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221004367 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 488221004368 amphipathic channel; other site 488221004369 Asn-Pro-Ala signature motifs; other site 488221004370 MucBP domain; Region: MucBP; pfam06458 488221004371 DDE superfamily endonuclease; Region: DDE_3; pfam13358 488221004372 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 488221004373 Transposase; Region: HTH_Tnp_IS630; pfam01710 488221004374 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 488221004375 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 488221004376 active site 488221004377 substrate binding site [chemical binding]; other site 488221004378 metal binding site [ion binding]; metal-binding site 488221004379 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 488221004380 catalytic residues [active] 488221004381 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 488221004382 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 488221004383 substrate binding pocket [chemical binding]; other site 488221004384 membrane-bound complex binding site; other site 488221004385 hinge residues; other site 488221004386 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 488221004387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221004388 Walker A/P-loop; other site 488221004389 ATP binding site [chemical binding]; other site 488221004390 Q-loop/lid; other site 488221004391 ABC transporter signature motif; other site 488221004392 Walker B; other site 488221004393 D-loop; other site 488221004394 H-loop/switch region; other site 488221004395 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221004396 dimer interface [polypeptide binding]; other site 488221004397 conserved gate region; other site 488221004398 putative PBP binding loops; other site 488221004399 ABC-ATPase subunit interface; other site 488221004400 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 488221004401 TPR motif; other site 488221004402 binding surface 488221004403 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 488221004404 binding surface 488221004405 TPR motif; other site 488221004406 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 488221004407 Domain of unknown function DUF20; Region: UPF0118; pfam01594 488221004408 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 488221004409 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 488221004410 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 488221004411 gamma subunit interface [polypeptide binding]; other site 488221004412 epsilon subunit interface [polypeptide binding]; other site 488221004413 LBP interface [polypeptide binding]; other site 488221004414 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 488221004415 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 488221004416 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 488221004417 alpha subunit interaction interface [polypeptide binding]; other site 488221004418 Walker A motif; other site 488221004419 ATP binding site [chemical binding]; other site 488221004420 Walker B motif; other site 488221004421 inhibitor binding site; inhibition site 488221004422 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 488221004423 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 488221004424 core domain interface [polypeptide binding]; other site 488221004425 delta subunit interface [polypeptide binding]; other site 488221004426 epsilon subunit interface [polypeptide binding]; other site 488221004427 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 488221004428 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 488221004429 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 488221004430 beta subunit interaction interface [polypeptide binding]; other site 488221004431 Walker A motif; other site 488221004432 ATP binding site [chemical binding]; other site 488221004433 Walker B motif; other site 488221004434 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 488221004435 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 488221004436 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 488221004437 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 488221004438 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 488221004439 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 488221004440 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 488221004441 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 488221004442 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 488221004443 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 488221004444 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 488221004445 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 488221004446 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 488221004447 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 488221004448 dimerization interface [polypeptide binding]; other site 488221004449 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 488221004450 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221004451 Coenzyme A binding pocket [chemical binding]; other site 488221004452 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221004453 Coenzyme A binding pocket [chemical binding]; other site 488221004454 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 488221004455 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 488221004456 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 488221004457 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 488221004458 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 488221004459 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 488221004460 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 488221004461 ATP binding site [chemical binding]; other site 488221004462 putative Mg++ binding site [ion binding]; other site 488221004463 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 488221004464 nucleotide binding region [chemical binding]; other site 488221004465 ATP-binding site [chemical binding]; other site 488221004466 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 488221004467 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 488221004468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221004469 homodimer interface [polypeptide binding]; other site 488221004470 catalytic residue [active] 488221004471 cystathionine gamma-synthase; Reviewed; Region: PRK07269 488221004472 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 488221004473 homodimer interface [polypeptide binding]; other site 488221004474 substrate-cofactor binding pocket; other site 488221004475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221004476 catalytic residue [active] 488221004477 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 488221004478 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 488221004479 peptide binding site [polypeptide binding]; other site 488221004480 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 488221004481 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 488221004482 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 488221004483 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 488221004484 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 488221004485 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 488221004486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 488221004487 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 488221004488 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 488221004489 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 488221004490 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 488221004491 DHH family; Region: DHH; pfam01368 488221004492 DHHA2 domain; Region: DHHA2; pfam02833 488221004493 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 488221004494 GIY-YIG motif/motif A; other site 488221004495 putative active site [active] 488221004496 putative metal binding site [ion binding]; other site 488221004497 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 488221004498 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 488221004499 S-adenosylmethionine binding site [chemical binding]; other site 488221004500 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 488221004501 hypothetical protein; Provisional; Region: PRK07252 488221004502 RNA binding site [nucleotide binding]; other site 488221004503 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 488221004504 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 488221004505 active site 488221004506 motif I; other site 488221004507 motif II; other site 488221004508 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 488221004509 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 488221004510 active site 488221004511 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 488221004512 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 488221004513 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 488221004514 dimer interface [polypeptide binding]; other site 488221004515 ssDNA binding site [nucleotide binding]; other site 488221004516 tetramer (dimer of dimers) interface [polypeptide binding]; other site 488221004517 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 488221004518 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 488221004519 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 488221004520 putative dimer interface [polypeptide binding]; other site 488221004521 putative anticodon binding site; other site 488221004522 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 488221004523 homodimer interface [polypeptide binding]; other site 488221004524 motif 1; other site 488221004525 motif 2; other site 488221004526 active site 488221004527 motif 3; other site 488221004528 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 488221004529 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 488221004530 aspartate aminotransferase; Provisional; Region: PRK05764 488221004531 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 488221004532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221004533 homodimer interface [polypeptide binding]; other site 488221004534 catalytic residue [active] 488221004535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 488221004536 Predicted flavoprotein [General function prediction only]; Region: COG0431 488221004537 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 488221004538 G5 domain; Region: G5; pfam07501 488221004539 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 488221004540 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 488221004541 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 488221004542 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 488221004543 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 488221004544 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 488221004545 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 488221004546 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 488221004547 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 488221004548 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 488221004549 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 488221004550 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 488221004551 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 488221004552 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 488221004553 Mga helix-turn-helix domain; Region: Mga; pfam05043 488221004554 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 488221004555 hypothetical protein; Validated; Region: PRK02101 488221004556 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 488221004557 active site 488221004558 catalytic residues [active] 488221004559 metal binding site [ion binding]; metal-binding site 488221004560 putative S-transferase; Provisional; Region: PRK11752 488221004561 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 488221004562 C-terminal domain interface [polypeptide binding]; other site 488221004563 GSH binding site (G-site) [chemical binding]; other site 488221004564 dimer interface [polypeptide binding]; other site 488221004565 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 488221004566 N-terminal domain interface [polypeptide binding]; other site 488221004567 dimer interface [polypeptide binding]; other site 488221004568 substrate binding pocket (H-site) [chemical binding]; other site 488221004569 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 488221004570 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 488221004571 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 488221004572 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 488221004573 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 488221004574 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 488221004575 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 488221004576 Cation efflux family; Region: Cation_efflux; pfam01545 488221004577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 488221004578 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 488221004579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221004580 Walker A/P-loop; other site 488221004581 ATP binding site [chemical binding]; other site 488221004582 Q-loop/lid; other site 488221004583 ABC transporter signature motif; other site 488221004584 Walker B; other site 488221004585 D-loop; other site 488221004586 H-loop/switch region; other site 488221004587 ABC transporter; Region: ABC_tran_2; pfam12848 488221004588 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221004589 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 488221004590 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 488221004591 active site 488221004592 NTP binding site [chemical binding]; other site 488221004593 metal binding triad [ion binding]; metal-binding site 488221004594 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 488221004595 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 488221004596 dihydrodipicolinate reductase; Provisional; Region: PRK00048 488221004597 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 488221004598 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 488221004599 EDD domain protein, DegV family; Region: DegV; TIGR00762 488221004600 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 488221004601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 488221004602 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 488221004603 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 488221004604 active site 488221004605 substrate binding site [chemical binding]; other site 488221004606 metal binding site [ion binding]; metal-binding site 488221004607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 488221004608 YbbR-like protein; Region: YbbR; pfam07949 488221004609 Uncharacterized conserved protein [Function unknown]; Region: COG1624 488221004610 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 488221004611 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 488221004612 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 488221004613 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488221004614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 488221004615 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 488221004616 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 488221004617 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 488221004618 dimer interface [polypeptide binding]; other site 488221004619 phosphate binding site [ion binding]; other site 488221004620 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 488221004621 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 488221004622 homotrimer interaction site [polypeptide binding]; other site 488221004623 putative active site [active] 488221004624 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 488221004625 G1 box; other site 488221004626 GTP/Mg2+ binding site [chemical binding]; other site 488221004627 Switch I region; other site 488221004628 G2 box; other site 488221004629 G3 box; other site 488221004630 Switch II region; other site 488221004631 G4 box; other site 488221004632 G5 box; other site 488221004633 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 488221004634 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 488221004635 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221004636 Walker A motif; other site 488221004637 ATP binding site [chemical binding]; other site 488221004638 Walker B motif; other site 488221004639 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 488221004640 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 488221004641 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 488221004642 folate binding site [chemical binding]; other site 488221004643 NADP+ binding site [chemical binding]; other site 488221004644 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 488221004645 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 488221004646 dimerization interface [polypeptide binding]; other site 488221004647 DPS ferroxidase diiron center [ion binding]; other site 488221004648 ion pore; other site 488221004649 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221004650 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 488221004651 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 488221004652 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 488221004653 active site 488221004654 triosephosphate isomerase; Provisional; Region: PRK14567 488221004655 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 488221004656 substrate binding site [chemical binding]; other site 488221004657 dimer interface [polypeptide binding]; other site 488221004658 catalytic triad [active] 488221004659 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 488221004660 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 488221004661 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 488221004662 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 488221004663 proposed active site lysine [active] 488221004664 conserved cys residue [active] 488221004665 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488221004666 active site 488221004667 Methyltransferase domain; Region: Methyltransf_31; pfam13847 488221004668 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 488221004669 S-adenosylmethionine binding site [chemical binding]; other site 488221004670 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 488221004671 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 488221004672 Walker A/P-loop; other site 488221004673 ATP binding site [chemical binding]; other site 488221004674 Q-loop/lid; other site 488221004675 ABC transporter signature motif; other site 488221004676 Walker B; other site 488221004677 D-loop; other site 488221004678 H-loop/switch region; other site 488221004679 TOBE domain; Region: TOBE_2; pfam08402 488221004680 Isochorismatase family; Region: Isochorismatase; pfam00857 488221004681 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; cd00431 488221004682 catalytic triad [active] 488221004683 conserved cis-peptide bond; other site 488221004684 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 488221004685 CodY GAF-like domain; Region: CodY; pfam06018 488221004686 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 488221004687 putative DNA binding site [nucleotide binding]; other site 488221004688 putative Zn2+ binding site [ion binding]; other site 488221004689 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 488221004690 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 488221004691 ATP binding site [chemical binding]; other site 488221004692 Mg++ binding site [ion binding]; other site 488221004693 motif III; other site 488221004694 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 488221004695 nucleotide binding region [chemical binding]; other site 488221004696 ATP-binding site [chemical binding]; other site 488221004697 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 488221004698 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221004699 DDE superfamily endonuclease; Region: DDE_4; cl17710 488221004700 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221004701 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 488221004702 putative substrate translocation pore; other site 488221004703 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 488221004704 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 488221004705 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 488221004706 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 488221004707 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 488221004708 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 488221004709 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 488221004710 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 488221004711 catalytic triad [active] 488221004712 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 488221004713 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 488221004714 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 488221004715 active site 488221004716 putative transposase OrfB; Reviewed; Region: PHA02517 488221004717 HTH-like domain; Region: HTH_21; pfam13276 488221004718 Integrase core domain; Region: rve; pfam00665 488221004719 Integrase core domain; Region: rve_2; pfam13333 488221004720 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 488221004721 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221004722 Predicted membrane protein [Function unknown]; Region: COG4720 488221004723 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 488221004724 dimer interface [polypeptide binding]; other site 488221004725 substrate binding site [chemical binding]; other site 488221004726 ATP binding site [chemical binding]; other site 488221004727 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 488221004728 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 488221004729 dimerization interface 3.5A [polypeptide binding]; other site 488221004730 active site 488221004731 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 488221004732 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 488221004733 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 488221004734 PhnA protein; Region: PhnA; pfam03831 488221004735 cytidylate kinase; Provisional; Region: cmk; PRK00023 488221004736 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 488221004737 CMP-binding site; other site 488221004738 The sites determining sugar specificity; other site 488221004739 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 488221004740 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 488221004741 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 488221004742 Ligand binding site; other site 488221004743 Putative Catalytic site; other site 488221004744 DXD motif; other site 488221004745 UDP-glucose 4-epimerase; Region: PLN02240 488221004746 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 488221004747 NAD binding site [chemical binding]; other site 488221004748 homodimer interface [polypeptide binding]; other site 488221004749 active site 488221004750 substrate binding site [chemical binding]; other site 488221004751 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 488221004752 Uncharacterized conserved protein [Function unknown]; Region: COG0327 488221004753 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 488221004754 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 488221004755 Family of unknown function (DUF633); Region: DUF633; pfam04816 488221004756 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 488221004757 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 488221004758 Integrase core domain; Region: rve; pfam00665 488221004759 Integrase core domain; Region: rve_2; pfam13333 488221004760 HTH-like domain; Region: HTH_21; pfam13276 488221004761 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 488221004762 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221004763 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 488221004764 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 488221004765 TPP-binding site [chemical binding]; other site 488221004766 dimer interface [polypeptide binding]; other site 488221004767 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 488221004768 PYR/PP interface [polypeptide binding]; other site 488221004769 dimer interface [polypeptide binding]; other site 488221004770 TPP binding site [chemical binding]; other site 488221004771 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 488221004772 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 488221004773 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 488221004774 substrate binding site [chemical binding]; other site 488221004775 hexamer interface [polypeptide binding]; other site 488221004776 metal binding site [ion binding]; metal-binding site 488221004777 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 488221004778 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 488221004779 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 488221004780 active site 488221004781 P-loop; other site 488221004782 phosphorylation site [posttranslational modification] 488221004783 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 488221004784 active site 488221004785 phosphorylation site [posttranslational modification] 488221004786 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 488221004787 active site 488221004788 phosphorylation site [posttranslational modification] 488221004789 HTH domain; Region: HTH_11; pfam08279 488221004790 Mga helix-turn-helix domain; Region: Mga; pfam05043 488221004791 PRD domain; Region: PRD; pfam00874 488221004792 PRD domain; Region: PRD; pfam00874 488221004793 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 488221004794 active site 488221004795 P-loop; other site 488221004796 phosphorylation site [posttranslational modification] 488221004797 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 488221004798 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 488221004799 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 488221004800 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 488221004801 motif II; other site 488221004802 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 488221004803 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 488221004804 putative acyl-acceptor binding pocket; other site 488221004805 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 488221004806 Cadmium resistance transporter; Region: Cad; pfam03596 488221004807 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 488221004808 16S/18S rRNA binding site [nucleotide binding]; other site 488221004809 S13e-L30e interaction site [polypeptide binding]; other site 488221004810 25S rRNA binding site [nucleotide binding]; other site 488221004811 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 488221004812 NADH(P)-binding; Region: NAD_binding_10; pfam13460 488221004813 NAD binding site [chemical binding]; other site 488221004814 substrate binding site [chemical binding]; other site 488221004815 putative active site [active] 488221004816 T-box leader; cis-reg00002 488221004817 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 488221004818 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 488221004819 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 488221004820 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 488221004821 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 488221004822 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 488221004823 active site 488221004824 dimer interface [polypeptide binding]; other site 488221004825 motif 1; other site 488221004826 motif 2; other site 488221004827 motif 3; other site 488221004828 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 488221004829 anticodon binding site; other site 488221004830 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 488221004831 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 488221004832 ATP binding site [chemical binding]; other site 488221004833 Mg2+ binding site [ion binding]; other site 488221004834 G-X-G motif; other site 488221004835 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488221004836 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 488221004837 active site 488221004838 phosphorylation site [posttranslational modification] 488221004839 intermolecular recognition site; other site 488221004840 dimerization interface [polypeptide binding]; other site 488221004841 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 488221004842 DNA binding site [nucleotide binding] 488221004843 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 488221004844 nucleophilic elbow; other site 488221004845 catalytic triad; other site 488221004846 Predicted transcriptional regulator [Transcription]; Region: COG1959 488221004847 Transcriptional regulator; Region: Rrf2; pfam02082 488221004848 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 488221004849 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 488221004850 active site 488221004851 metal binding site [ion binding]; metal-binding site 488221004852 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 488221004853 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 488221004854 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 488221004855 FeoA domain; Region: FeoA; pfam04023 488221004856 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 488221004857 putative active site [active] 488221004858 dimerization interface [polypeptide binding]; other site 488221004859 putative tRNAtyr binding site [nucleotide binding]; other site 488221004860 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 488221004861 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 488221004862 Zn2+ binding site [ion binding]; other site 488221004863 Mg2+ binding site [ion binding]; other site 488221004864 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 488221004865 synthetase active site [active] 488221004866 NTP binding site [chemical binding]; other site 488221004867 metal binding site [ion binding]; metal-binding site 488221004868 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 488221004869 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 488221004870 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 488221004871 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 488221004872 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 488221004873 active site 488221004874 Zn binding site [ion binding]; other site 488221004875 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 488221004876 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 488221004877 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 488221004878 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 488221004879 ABC-ATPase subunit interface; other site 488221004880 dimer interface [polypeptide binding]; other site 488221004881 putative PBP binding regions; other site 488221004882 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 488221004883 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 488221004884 metal binding site [ion binding]; metal-binding site 488221004885 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 488221004886 dimer interface [polypeptide binding]; other site 488221004887 catalytic triad [active] 488221004888 peroxidatic and resolving cysteines [active] 488221004889 FtsX-like permease family; Region: FtsX; pfam02687 488221004890 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 488221004891 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 488221004892 FtsX-like permease family; Region: FtsX; pfam02687 488221004893 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 488221004894 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 488221004895 Walker A/P-loop; other site 488221004896 ATP binding site [chemical binding]; other site 488221004897 Q-loop/lid; other site 488221004898 ABC transporter signature motif; other site 488221004899 Walker B; other site 488221004900 D-loop; other site 488221004901 H-loop/switch region; other site 488221004902 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 488221004903 catalytic core [active] 488221004904 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 488221004905 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 488221004906 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 488221004907 active site 488221004908 HIGH motif; other site 488221004909 nucleotide binding site [chemical binding]; other site 488221004910 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 488221004911 active site 488221004912 KMSKS motif; other site 488221004913 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 488221004914 tRNA binding surface [nucleotide binding]; other site 488221004915 anticodon binding site; other site 488221004916 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 488221004917 T-box leader; cis-reg00005 488221004918 DivIVA domain; Region: DivI1A_domain; TIGR03544 488221004919 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 488221004920 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 488221004921 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 488221004922 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 488221004923 RNA binding surface [nucleotide binding]; other site 488221004924 YGGT family; Region: YGGT; pfam02325 488221004925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 488221004926 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 488221004927 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 488221004928 catalytic residue [active] 488221004929 cell division protein FtsZ; Validated; Region: PRK09330 488221004930 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 488221004931 nucleotide binding site [chemical binding]; other site 488221004932 SulA interaction site; other site 488221004933 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 488221004934 Cell division protein FtsA; Region: FtsA; smart00842 488221004935 Cell division protein FtsA; Region: FtsA; pfam14450 488221004936 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 488221004937 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 488221004938 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 488221004939 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 488221004940 nudix motif; other site 488221004941 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 488221004942 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 488221004943 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 488221004944 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 488221004945 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 488221004946 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 488221004947 recombination protein RecR; Reviewed; Region: recR; PRK00076 488221004948 RecR protein; Region: RecR; pfam02132 488221004949 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 488221004950 putative active site [active] 488221004951 putative metal-binding site [ion binding]; other site 488221004952 tetramer interface [polypeptide binding]; other site 488221004953 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 488221004954 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 488221004955 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 488221004956 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 488221004957 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 488221004958 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 488221004959 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 488221004960 putative active site [active] 488221004961 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 488221004962 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 488221004963 nucleotide binding site [chemical binding]; other site 488221004964 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 488221004965 Class I aldolases; Region: Aldolase_Class_I; cl17187 488221004966 catalytic residue [active] 488221004967 Protein of unknown function, DUF624; Region: DUF624; pfam04854 488221004968 Domain of unknown function (DUF386); Region: DUF386; pfam04074 488221004969 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488221004970 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221004971 dimer interface [polypeptide binding]; other site 488221004972 conserved gate region; other site 488221004973 putative PBP binding loops; other site 488221004974 ABC-ATPase subunit interface; other site 488221004975 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 488221004976 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 488221004977 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221004978 putative PBP binding loops; other site 488221004979 dimer interface [polypeptide binding]; other site 488221004980 ABC-ATPase subunit interface; other site 488221004981 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 488221004982 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 488221004983 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 488221004984 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 488221004985 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 488221004986 active site turn [active] 488221004987 phosphorylation site [posttranslational modification] 488221004988 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 488221004989 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 488221004990 putative active site cavity [active] 488221004991 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 488221004992 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 488221004993 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 488221004994 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 488221004995 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 488221004996 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 488221004997 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 488221004998 Asp-box motif; other site 488221004999 catalytic site [active] 488221005000 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488221005001 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221005002 dimer interface [polypeptide binding]; other site 488221005003 conserved gate region; other site 488221005004 putative PBP binding loops; other site 488221005005 ABC-ATPase subunit interface; other site 488221005006 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 488221005007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221005008 dimer interface [polypeptide binding]; other site 488221005009 conserved gate region; other site 488221005010 putative PBP binding loops; other site 488221005011 ABC-ATPase subunit interface; other site 488221005012 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 488221005013 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 488221005014 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 488221005015 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 488221005016 calcium mediated ligand binding site; other site 488221005017 intermolecular salt bridges; other site 488221005018 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 488221005019 Asp-box motif; other site 488221005020 catalytic site [active] 488221005021 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 488221005022 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 488221005023 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 488221005024 ssDNA binding site; other site 488221005025 generic binding surface II; other site 488221005026 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 488221005027 ATP binding site [chemical binding]; other site 488221005028 putative Mg++ binding site [ion binding]; other site 488221005029 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 488221005030 nucleotide binding region [chemical binding]; other site 488221005031 ATP-binding site [chemical binding]; other site 488221005032 alanine racemase; Reviewed; Region: alr; PRK00053 488221005033 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 488221005034 active site 488221005035 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 488221005036 dimer interface [polypeptide binding]; other site 488221005037 substrate binding site [chemical binding]; other site 488221005038 catalytic residues [active] 488221005039 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 488221005040 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 488221005041 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 488221005042 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 488221005043 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 488221005044 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 488221005045 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 488221005046 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 488221005047 nucleotide binding region [chemical binding]; other site 488221005048 ATP-binding site [chemical binding]; other site 488221005049 SEC-C motif; Region: SEC-C; pfam02810 488221005050 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 488221005051 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 488221005052 Walker A/P-loop; other site 488221005053 ATP binding site [chemical binding]; other site 488221005054 Q-loop/lid; other site 488221005055 ABC transporter signature motif; other site 488221005056 Walker B; other site 488221005057 D-loop; other site 488221005058 H-loop/switch region; other site 488221005059 GTP-binding protein Der; Reviewed; Region: PRK00093 488221005060 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 488221005061 G1 box; other site 488221005062 GTP/Mg2+ binding site [chemical binding]; other site 488221005063 Switch I region; other site 488221005064 G2 box; other site 488221005065 Switch II region; other site 488221005066 G3 box; other site 488221005067 G4 box; other site 488221005068 G5 box; other site 488221005069 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 488221005070 G1 box; other site 488221005071 GTP/Mg2+ binding site [chemical binding]; other site 488221005072 Switch I region; other site 488221005073 G2 box; other site 488221005074 G3 box; other site 488221005075 Switch II region; other site 488221005076 G4 box; other site 488221005077 G5 box; other site 488221005078 primosomal protein DnaI; Reviewed; Region: PRK08939 488221005079 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 488221005080 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221005081 Walker A motif; other site 488221005082 ATP binding site [chemical binding]; other site 488221005083 Walker B motif; other site 488221005084 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 488221005085 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 488221005086 ATP cone domain; Region: ATP-cone; pfam03477 488221005087 Predicted transcriptional regulators [Transcription]; Region: COG1725 488221005088 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488221005089 DNA-binding site [nucleotide binding]; DNA binding site 488221005090 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 488221005091 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 488221005092 Walker A/P-loop; other site 488221005093 ATP binding site [chemical binding]; other site 488221005094 Q-loop/lid; other site 488221005095 ABC transporter signature motif; other site 488221005096 Walker B; other site 488221005097 D-loop; other site 488221005098 H-loop/switch region; other site 488221005099 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 488221005100 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 488221005101 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221005102 Walker A/P-loop; other site 488221005103 ATP binding site [chemical binding]; other site 488221005104 Q-loop/lid; other site 488221005105 ABC transporter signature motif; other site 488221005106 Walker B; other site 488221005107 D-loop; other site 488221005108 H-loop/switch region; other site 488221005109 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 488221005110 Uncharacterized conserved protein [Function unknown]; Region: COG0398 488221005111 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 488221005112 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 488221005113 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 488221005114 nucleotide binding site [chemical binding]; other site 488221005115 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 488221005116 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 488221005117 active site turn [active] 488221005118 phosphorylation site [posttranslational modification] 488221005119 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 488221005120 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 488221005121 HPr interaction site; other site 488221005122 glycerol kinase (GK) interaction site [polypeptide binding]; other site 488221005123 active site 488221005124 phosphorylation site [posttranslational modification] 488221005125 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 488221005126 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 488221005127 substrate binding [chemical binding]; other site 488221005128 active site 488221005129 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 488221005130 Transcriptional regulators [Transcription]; Region: PurR; COG1609 488221005131 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 488221005132 DNA binding site [nucleotide binding] 488221005133 domain linker motif; other site 488221005134 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 488221005135 dimerization interface [polypeptide binding]; other site 488221005136 ligand binding site [chemical binding]; other site 488221005137 sodium binding site [ion binding]; other site 488221005138 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 488221005139 homodimer interface [polypeptide binding]; other site 488221005140 catalytic residues [active] 488221005141 NAD binding site [chemical binding]; other site 488221005142 substrate binding pocket [chemical binding]; other site 488221005143 flexible flap; other site 488221005144 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 488221005145 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 488221005146 dimer interface [polypeptide binding]; other site 488221005147 active site 488221005148 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 488221005149 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221005150 Uncharacterized conserved protein [Function unknown]; Region: COG3610 488221005151 Uncharacterized conserved protein [Function unknown]; Region: COG2966 488221005152 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 488221005153 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 488221005154 Catalytic domain of Protein Kinases; Region: PKc; cd00180 488221005155 active site 488221005156 ATP binding site [chemical binding]; other site 488221005157 substrate binding site [chemical binding]; other site 488221005158 activation loop (A-loop); other site 488221005159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 488221005160 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 488221005161 PASTA domain; Region: PASTA; smart00740 488221005162 PASTA domain; Region: PASTA; smart00740 488221005163 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 488221005164 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; cd00143 488221005165 active site 488221005166 16S rRNA methyltransferase B; Provisional; Region: PRK14902 488221005167 NusB family; Region: NusB; pfam01029 488221005168 putative RNA binding site [nucleotide binding]; other site 488221005169 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 488221005170 S-adenosylmethionine binding site [chemical binding]; other site 488221005171 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 488221005172 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 488221005173 putative active site [active] 488221005174 substrate binding site [chemical binding]; other site 488221005175 putative cosubstrate binding site; other site 488221005176 catalytic site [active] 488221005177 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 488221005178 substrate binding site [chemical binding]; other site 488221005179 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 488221005180 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 488221005181 ATP binding site [chemical binding]; other site 488221005182 putative Mg++ binding site [ion binding]; other site 488221005183 helicase superfamily c-terminal domain; Region: HELICc; smart00490 488221005184 ATP-binding site [chemical binding]; other site 488221005185 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 488221005186 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 488221005187 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 488221005188 catalytic site [active] 488221005189 G-X2-G-X-G-K; other site 488221005190 hypothetical protein; Provisional; Region: PRK00106 488221005191 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 488221005192 Zn2+ binding site [ion binding]; other site 488221005193 Mg2+ binding site [ion binding]; other site 488221005194 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 488221005195 hypothetical protein; Provisional; Region: PRK13670 488221005196 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 488221005197 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 488221005198 S-adenosylmethionine binding site [chemical binding]; other site 488221005199 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 488221005200 Isochorismatase family; Region: Isochorismatase; pfam00857 488221005201 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 488221005202 catalytic triad [active] 488221005203 conserved cis-peptide bond; other site 488221005204 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 488221005205 Zn2+ binding site [ion binding]; other site 488221005206 Mg2+ binding site [ion binding]; other site 488221005207 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 488221005208 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 488221005209 active site 488221005210 (T/H)XGH motif; other site 488221005211 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 488221005212 GTPase YqeH; Provisional; Region: PRK13796 488221005213 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 488221005214 GTP/Mg2+ binding site [chemical binding]; other site 488221005215 G4 box; other site 488221005216 G5 box; other site 488221005217 G1 box; other site 488221005218 Switch I region; other site 488221005219 G2 box; other site 488221005220 G3 box; other site 488221005221 Switch II region; other site 488221005222 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 488221005223 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 488221005224 active site 488221005225 motif I; other site 488221005226 motif II; other site 488221005227 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 488221005228 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 488221005229 Cl binding site [ion binding]; other site 488221005230 oligomer interface [polypeptide binding]; other site 488221005231 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 488221005232 Mechanosensitive ion channel; Region: MS_channel; pfam00924 488221005233 serine/threonine transporter SstT; Provisional; Region: PRK14695 488221005234 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 488221005235 Predicted membrane protein [Function unknown]; Region: COG4129 488221005236 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 488221005237 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 488221005238 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 488221005239 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 488221005240 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 488221005241 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 488221005242 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 488221005243 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 488221005244 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 488221005245 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 488221005246 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 488221005247 Adenylate cyclase associated (CAP) N terminal; Region: CAP_N; pfam01213 488221005248 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12417 488221005249 SecY translocase; Region: SecY; pfam00344 488221005250 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 488221005251 active site 488221005252 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 488221005253 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 488221005254 Ligand binding site; other site 488221005255 metal-binding site 488221005256 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 488221005257 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 488221005258 Ligand binding site; other site 488221005259 metal-binding site 488221005260 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 488221005261 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 488221005262 Ligand binding site; other site 488221005263 metal-binding site 488221005264 glycosyltransferase, SP_1767 family; Region: glyco_access_1; TIGR03728 488221005265 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 488221005266 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 488221005267 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 488221005268 trimer interface [polypeptide binding]; other site 488221005269 active site 488221005270 substrate binding site [chemical binding]; other site 488221005271 CoA binding site [chemical binding]; other site 488221005272 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 488221005273 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 488221005274 Ligand binding site; other site 488221005275 metal-binding site 488221005276 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221005277 DDE superfamily endonuclease; Region: DDE_4; cl17710 488221005278 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221005279 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 488221005280 active site 488221005281 serine-rich repeat adhesion glycoprotein AST domain; Region: ser_adhes_Nterm; TIGR04224 488221005282 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 488221005283 potential frameshift: common BLAST hit: gi|182684721|ref|YP_001836468.1| degenerate transposase 488221005284 DDE superfamily endonuclease; Region: DDE_3; pfam13358 488221005285 MarR family; Region: MarR; pfam01047 488221005286 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 488221005287 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 488221005288 catalytic residues [active] 488221005289 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 488221005290 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 488221005291 amphipathic channel; other site 488221005292 Asn-Pro-Ala signature motifs; other site 488221005293 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 488221005294 oligoendopeptidase F; Region: pepF; TIGR00181 488221005295 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 488221005296 Zn binding site [ion binding]; other site 488221005297 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 488221005298 RNA methyltransferase, RsmE family; Region: TIGR00046 488221005299 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 488221005300 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 488221005301 S-adenosylmethionine binding site [chemical binding]; other site 488221005302 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_23; cd04682 488221005303 nudix motif; other site 488221005304 Peptidase family M50; Region: Peptidase_M50; pfam02163 488221005305 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 488221005306 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 488221005307 YcfA-like protein; Region: YcfA; pfam07927 488221005308 recombination factor protein RarA; Reviewed; Region: PRK13342 488221005309 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221005310 Walker A motif; other site 488221005311 ATP binding site [chemical binding]; other site 488221005312 Walker B motif; other site 488221005313 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 488221005314 arginine finger; other site 488221005315 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 488221005316 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 488221005317 Int/Topo IB signature motif; other site 488221005318 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 488221005319 Replication initiation factor; Region: Rep_trans; pfam02486 488221005320 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 488221005321 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 488221005322 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 488221005323 substrate binding [chemical binding]; other site 488221005324 active site 488221005325 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 488221005326 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488221005327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221005328 dimer interface [polypeptide binding]; other site 488221005329 conserved gate region; other site 488221005330 putative PBP binding loops; other site 488221005331 ABC-ATPase subunit interface; other site 488221005332 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 488221005333 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221005334 dimer interface [polypeptide binding]; other site 488221005335 conserved gate region; other site 488221005336 putative PBP binding loops; other site 488221005337 ABC-ATPase subunit interface; other site 488221005338 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 488221005339 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 488221005340 Transcriptional regulators [Transcription]; Region: PurR; COG1609 488221005341 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 488221005342 DNA binding site [nucleotide binding] 488221005343 domain linker motif; other site 488221005344 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 488221005345 dimerization interface [polypeptide binding]; other site 488221005346 ligand binding site [chemical binding]; other site 488221005347 sodium binding site [ion binding]; other site 488221005348 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 488221005349 Mga helix-turn-helix domain; Region: Mga; pfam05043 488221005350 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 488221005351 Predicted membrane protein [Function unknown]; Region: COG2261 488221005352 Small integral membrane protein [Function unknown]; Region: COG5547 488221005353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 488221005354 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 488221005355 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 488221005356 Uncharacterized conserved protein [Function unknown]; Region: COG1262 488221005357 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 488221005358 arylsulfatase; Provisional; Region: PRK13759 488221005359 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 488221005360 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 488221005361 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 488221005362 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 488221005363 active site 488221005364 methionine cluster; other site 488221005365 phosphorylation site [posttranslational modification] 488221005366 metal binding site [ion binding]; metal-binding site 488221005367 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 488221005368 active site 488221005369 P-loop; other site 488221005370 phosphorylation site [posttranslational modification] 488221005371 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 488221005372 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 488221005373 MarR family; Region: MarR_2; pfam12802 488221005374 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 488221005375 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 488221005376 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 488221005377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221005378 Coenzyme A binding pocket [chemical binding]; other site 488221005379 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 488221005380 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 488221005381 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 488221005382 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488221005383 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221005384 non-specific DNA binding site [nucleotide binding]; other site 488221005385 salt bridge; other site 488221005386 sequence-specific DNA binding site [nucleotide binding]; other site 488221005387 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 488221005388 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 488221005389 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 488221005390 substrate binding site [chemical binding]; other site 488221005391 active site 488221005392 catalytic residues [active] 488221005393 heterodimer interface [polypeptide binding]; other site 488221005394 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 488221005395 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 488221005396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221005397 catalytic residue [active] 488221005398 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 488221005399 active site 488221005400 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 488221005401 active site 488221005402 ribulose/triose binding site [chemical binding]; other site 488221005403 phosphate binding site [ion binding]; other site 488221005404 substrate (anthranilate) binding pocket [chemical binding]; other site 488221005405 product (indole) binding pocket [chemical binding]; other site 488221005406 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 488221005407 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 488221005408 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 488221005409 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 488221005410 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 488221005411 glutamine binding [chemical binding]; other site 488221005412 catalytic triad [active] 488221005413 anthranilate synthase component I; Provisional; Region: PRK13570 488221005414 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 488221005415 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 488221005416 T-box leader; cis-reg00003 488221005417 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 488221005418 T-box leader; cis-reg00004 488221005419 Transcriptional regulators [Transcription]; Region: PurR; COG1609 488221005420 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 488221005421 DNA binding site [nucleotide binding] 488221005422 domain linker motif; other site 488221005423 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 488221005424 putative dimerization interface [polypeptide binding]; other site 488221005425 putative ligand binding site [chemical binding]; other site 488221005426 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 488221005427 MgtC family; Region: MgtC; pfam02308 488221005428 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 488221005429 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221005430 dimer interface [polypeptide binding]; other site 488221005431 conserved gate region; other site 488221005432 putative PBP binding loops; other site 488221005433 ABC-ATPase subunit interface; other site 488221005434 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221005435 putative PBP binding loops; other site 488221005436 dimer interface [polypeptide binding]; other site 488221005437 ABC-ATPase subunit interface; other site 488221005438 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 488221005439 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221005440 Walker A/P-loop; other site 488221005441 ATP binding site [chemical binding]; other site 488221005442 Q-loop/lid; other site 488221005443 ABC transporter signature motif; other site 488221005444 Walker B; other site 488221005445 D-loop; other site 488221005446 H-loop/switch region; other site 488221005447 TOBE domain; Region: TOBE; pfam03459 488221005448 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 488221005449 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 488221005450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 488221005451 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 488221005452 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 488221005453 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 488221005454 Pectate lyase; Region: Pec_lyase_C; cl01593 488221005455 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 488221005456 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 488221005457 inhibitor-cofactor binding pocket; inhibition site 488221005458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221005459 catalytic residue [active] 488221005460 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 488221005461 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 488221005462 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221005463 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 488221005464 Walker A/P-loop; other site 488221005465 ATP binding site [chemical binding]; other site 488221005466 Q-loop/lid; other site 488221005467 ABC transporter signature motif; other site 488221005468 Walker B; other site 488221005469 D-loop; other site 488221005470 H-loop/switch region; other site 488221005471 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221005472 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 488221005473 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221005474 Walker A/P-loop; other site 488221005475 ATP binding site [chemical binding]; other site 488221005476 Q-loop/lid; other site 488221005477 ABC transporter signature motif; other site 488221005478 Walker B; other site 488221005479 D-loop; other site 488221005480 H-loop/switch region; other site 488221005481 Predicted membrane protein [Function unknown]; Region: COG2323 488221005482 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 488221005483 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 488221005484 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 488221005485 active site 488221005486 putative catalytic site [active] 488221005487 DNA binding site [nucleotide binding] 488221005488 putative phosphate binding site [ion binding]; other site 488221005489 metal binding site A [ion binding]; metal-binding site 488221005490 AP binding site [nucleotide binding]; other site 488221005491 metal binding site B [ion binding]; metal-binding site 488221005492 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488221005493 active site 488221005494 xanthine permease; Region: pbuX; TIGR03173 488221005495 Sulfate transporter family; Region: Sulfate_transp; pfam00916 488221005496 DpnII restriction endonuclease; Region: DpnII; pfam04556 488221005497 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 488221005498 DNA methylase; Region: N6_N4_Mtase; pfam01555 488221005499 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 488221005500 S-adenosylmethionine binding site [chemical binding]; other site 488221005501 DNA adenine methylase (dam); Region: dam; TIGR00571 488221005502 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 488221005503 CoenzymeA binding site [chemical binding]; other site 488221005504 subunit interaction site [polypeptide binding]; other site 488221005505 PHB binding site; other site 488221005506 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 488221005507 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 488221005508 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 488221005509 galactokinase; Provisional; Region: PRK05322 488221005510 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 488221005511 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 488221005512 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 488221005513 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 488221005514 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 488221005515 DNA binding site [nucleotide binding] 488221005516 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 488221005517 putative dimerization interface [polypeptide binding]; other site 488221005518 putative ligand binding site [chemical binding]; other site 488221005519 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 488221005520 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 488221005521 catalytic Zn binding site [ion binding]; other site 488221005522 NAD(P) binding site [chemical binding]; other site 488221005523 structural Zn binding site [ion binding]; other site 488221005524 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 488221005525 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 488221005526 DNA binding residues [nucleotide binding] 488221005527 putative dimer interface [polypeptide binding]; other site 488221005528 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 488221005529 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 488221005530 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 488221005531 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 488221005532 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221005533 dimer interface [polypeptide binding]; other site 488221005534 conserved gate region; other site 488221005535 ABC-ATPase subunit interface; other site 488221005536 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 488221005537 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 488221005538 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 488221005539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221005540 Walker A/P-loop; other site 488221005541 ATP binding site [chemical binding]; other site 488221005542 Q-loop/lid; other site 488221005543 ABC transporter signature motif; other site 488221005544 Walker B; other site 488221005545 D-loop; other site 488221005546 H-loop/switch region; other site 488221005547 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 488221005548 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 488221005549 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 488221005550 Enterocin A Immunity; Region: EntA_Immun; pfam08951 488221005551 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 488221005552 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 488221005553 oligomer interface [polypeptide binding]; other site 488221005554 active site 488221005555 metal binding site [ion binding]; metal-binding site 488221005556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488221005557 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 488221005558 NAD(P) binding site [chemical binding]; other site 488221005559 active site 488221005560 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 488221005561 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 488221005562 ABC-ATPase subunit interface; other site 488221005563 dimer interface [polypeptide binding]; other site 488221005564 putative PBP binding regions; other site 488221005565 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 488221005566 ABC-ATPase subunit interface; other site 488221005567 dimer interface [polypeptide binding]; other site 488221005568 putative PBP binding regions; other site 488221005569 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 488221005570 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 488221005571 Walker A/P-loop; other site 488221005572 ATP binding site [chemical binding]; other site 488221005573 Q-loop/lid; other site 488221005574 ABC transporter signature motif; other site 488221005575 Walker B; other site 488221005576 D-loop; other site 488221005577 H-loop/switch region; other site 488221005578 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 488221005579 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 488221005580 putative ligand binding residues [chemical binding]; other site 488221005581 hypothetical protein; Validated; Region: PRK00041 488221005582 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 488221005583 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 488221005584 RNA binding surface [nucleotide binding]; other site 488221005585 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 488221005586 active site 488221005587 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 488221005588 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 488221005589 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 488221005590 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 488221005591 DNA binding site [nucleotide binding] 488221005592 Int/Topo IB signature motif; other site 488221005593 active site 488221005594 catalytic residues [active] 488221005595 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 488221005596 FOG: CBS domain [General function prediction only]; Region: COG0517 488221005597 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 488221005598 active site 488221005599 metal binding site [ion binding]; metal-binding site 488221005600 homotetramer interface [polypeptide binding]; other site 488221005601 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 488221005602 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 488221005603 active site 488221005604 dimerization interface [polypeptide binding]; other site 488221005605 glutamate racemase; Provisional; Region: PRK00865 488221005606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 488221005607 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 488221005608 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 488221005609 Ca binding site [ion binding]; other site 488221005610 active site 488221005611 catalytic site [active] 488221005612 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 488221005613 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 488221005614 active site turn [active] 488221005615 phosphorylation site [posttranslational modification] 488221005616 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 488221005617 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 488221005618 HPr interaction site; other site 488221005619 glycerol kinase (GK) interaction site [polypeptide binding]; other site 488221005620 active site 488221005621 phosphorylation site [posttranslational modification] 488221005622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488221005623 DNA-binding site [nucleotide binding]; DNA binding site 488221005624 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 488221005625 UTRA domain; Region: UTRA; pfam07702 488221005626 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 488221005627 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221005628 Transposase; Region: DDE_Tnp_ISL3; pfam01610 488221005629 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 488221005630 Transposase; Region: DDE_Tnp_ISL3; pfam01610 488221005631 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221005632 Transposase; Region: DDE_Tnp_ISL3; pfam01610 488221005633 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 488221005634 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 488221005635 Walker A/P-loop; other site 488221005636 ATP binding site [chemical binding]; other site 488221005637 Q-loop/lid; other site 488221005638 ABC transporter signature motif; other site 488221005639 Walker B; other site 488221005640 D-loop; other site 488221005641 H-loop/switch region; other site 488221005642 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 488221005643 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 488221005644 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 488221005645 Walker A/P-loop; other site 488221005646 ATP binding site [chemical binding]; other site 488221005647 Q-loop/lid; other site 488221005648 ABC transporter signature motif; other site 488221005649 Walker B; other site 488221005650 D-loop; other site 488221005651 H-loop/switch region; other site 488221005652 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 488221005653 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 488221005654 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 488221005655 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221005656 dimer interface [polypeptide binding]; other site 488221005657 conserved gate region; other site 488221005658 putative PBP binding loops; other site 488221005659 ABC-ATPase subunit interface; other site 488221005660 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 488221005661 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221005662 dimer interface [polypeptide binding]; other site 488221005663 conserved gate region; other site 488221005664 putative PBP binding loops; other site 488221005665 ABC-ATPase subunit interface; other site 488221005666 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 488221005667 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 488221005668 peptide binding site [polypeptide binding]; other site 488221005669 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 488221005670 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 488221005671 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 488221005672 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 488221005673 active site 488221005674 homodimer interface [polypeptide binding]; other site 488221005675 catalytic site [active] 488221005676 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488221005677 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221005678 dimer interface [polypeptide binding]; other site 488221005679 conserved gate region; other site 488221005680 putative PBP binding loops; other site 488221005681 ABC-ATPase subunit interface; other site 488221005682 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221005683 dimer interface [polypeptide binding]; other site 488221005684 conserved gate region; other site 488221005685 putative PBP binding loops; other site 488221005686 ABC-ATPase subunit interface; other site 488221005687 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 488221005688 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 488221005689 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 488221005690 Melibiase; Region: Melibiase; pfam02065 488221005691 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 488221005692 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 488221005693 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 488221005694 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 488221005695 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 488221005696 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488221005697 DNA-binding site [nucleotide binding]; DNA binding site 488221005698 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 488221005699 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 488221005700 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 488221005701 Transposase; Region: DDE_Tnp_ISL3; pfam01610 488221005702 TRAM domain; Region: TRAM; pfam01938 488221005703 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 488221005704 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 488221005705 S-adenosylmethionine binding site [chemical binding]; other site 488221005706 recombination regulator RecX; Provisional; Region: recX; PRK14135 488221005707 hypothetical protein; Provisional; Region: PRK13662 488221005708 potential frameshift: common BLAST hit: gi|94991707|ref|YP_599806.1| putative cytoplasmic protein 488221005709 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 488221005710 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 488221005711 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 488221005712 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 488221005713 ring oligomerisation interface [polypeptide binding]; other site 488221005714 ATP/Mg binding site [chemical binding]; other site 488221005715 stacking interactions; other site 488221005716 hinge regions; other site 488221005717 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 488221005718 oligomerisation interface [polypeptide binding]; other site 488221005719 mobile loop; other site 488221005720 roof hairpin; other site 488221005721 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 488221005722 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 488221005723 dimer interface [polypeptide binding]; other site 488221005724 ssDNA binding site [nucleotide binding]; other site 488221005725 tetramer (dimer of dimers) interface [polypeptide binding]; other site 488221005726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 488221005727 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 488221005728 NAD(P) binding site [chemical binding]; other site 488221005729 active site 488221005730 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 488221005731 putative tRNA-binding site [nucleotide binding]; other site 488221005732 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 488221005733 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 488221005734 catalytic residues [active] 488221005735 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221005736 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 488221005737 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 488221005738 LytTr DNA-binding domain; Region: LytTR; smart00850 488221005739 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 488221005740 active site 488221005741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4898 488221005742 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 488221005743 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221005744 Walker A/P-loop; other site 488221005745 ATP binding site [chemical binding]; other site 488221005746 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 488221005747 Walker A/P-loop; other site 488221005748 ATP binding site [chemical binding]; other site 488221005749 Q-loop/lid; other site 488221005750 ABC transporter signature motif; other site 488221005751 Walker B; other site 488221005752 D-loop; other site 488221005753 H-loop/switch region; other site 488221005754 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 488221005755 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221005756 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 488221005757 hypothetical protein; Provisional; Region: PRK12378 488221005758 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 488221005759 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 488221005760 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 488221005761 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 488221005762 Domain of unknown function (DUF955); Region: DUF955; cl01076 488221005763 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488221005764 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221005765 non-specific DNA binding site [nucleotide binding]; other site 488221005766 salt bridge; other site 488221005767 sequence-specific DNA binding site [nucleotide binding]; other site 488221005768 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221005769 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 488221005770 amidase catalytic site [active] 488221005771 Zn binding residues [ion binding]; other site 488221005772 substrate binding site [chemical binding]; other site 488221005773 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221005774 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221005775 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 488221005776 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 488221005777 recombinase A; Provisional; Region: recA; PRK09354 488221005778 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 488221005779 hexamer interface [polypeptide binding]; other site 488221005780 Walker A motif; other site 488221005781 ATP binding site [chemical binding]; other site 488221005782 Walker B motif; other site 488221005783 competence damage-inducible protein A; Provisional; Region: PRK00549 488221005784 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 488221005785 putative MPT binding site; other site 488221005786 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 488221005787 Transcriptional regulator [Transcription]; Region: LytR; COG1316 488221005788 putative acetyltransferase YhhY; Provisional; Region: PRK10140 488221005789 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221005790 Coenzyme A binding pocket [chemical binding]; other site 488221005791 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 488221005792 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488221005793 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221005794 non-specific DNA binding site [nucleotide binding]; other site 488221005795 salt bridge; other site 488221005796 sequence-specific DNA binding site [nucleotide binding]; other site 488221005797 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 488221005798 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 488221005799 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 488221005800 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 488221005801 Walker A/P-loop; other site 488221005802 ATP binding site [chemical binding]; other site 488221005803 Q-loop/lid; other site 488221005804 ABC transporter signature motif; other site 488221005805 Walker B; other site 488221005806 D-loop; other site 488221005807 H-loop/switch region; other site 488221005808 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 488221005809 active site 488221005810 multimer interface [polypeptide binding]; other site 488221005811 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 488221005812 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 488221005813 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 488221005814 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 488221005815 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 488221005816 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 488221005817 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 488221005818 G-loop; other site 488221005819 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 488221005820 DNA binding site [nucleotide binding] 488221005821 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 488221005822 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 488221005823 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 488221005824 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 488221005825 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 488221005826 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 488221005827 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 488221005828 RPB1 interaction site [polypeptide binding]; other site 488221005829 RPB10 interaction site [polypeptide binding]; other site 488221005830 RPB11 interaction site [polypeptide binding]; other site 488221005831 RPB3 interaction site [polypeptide binding]; other site 488221005832 RPB12 interaction site [polypeptide binding]; other site 488221005833 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 488221005834 Domain of unknown function DUF21; Region: DUF21; pfam01595 488221005835 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 488221005836 Transporter associated domain; Region: CorC_HlyC; smart01091 488221005837 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 488221005838 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 488221005839 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 488221005840 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 488221005841 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 488221005842 hinge; other site 488221005843 active site 488221005844 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 488221005845 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 488221005846 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 488221005847 protein binding site [polypeptide binding]; other site 488221005848 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 488221005849 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 488221005850 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 488221005851 active site 488221005852 (T/H)XGH motif; other site 488221005853 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 488221005854 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 488221005855 S-adenosylmethionine binding site [chemical binding]; other site 488221005856 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 488221005857 dimer interface [polypeptide binding]; other site 488221005858 active site 488221005859 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 488221005860 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 488221005861 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 488221005862 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 488221005863 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 488221005864 acylphosphatase; Provisional; Region: PRK14434 488221005865 OxaA-like protein precursor; Provisional; Region: PRK02463 488221005866 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 488221005867 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 488221005868 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 488221005869 FeS/SAM binding site; other site 488221005870 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 488221005871 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 488221005872 active site 488221005873 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 488221005874 substrate binding site [chemical binding]; other site 488221005875 catalytic residues [active] 488221005876 dimer interface [polypeptide binding]; other site 488221005877 pur operon repressor; Provisional; Region: PRK09213 488221005878 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 488221005879 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488221005880 active site 488221005881 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 488221005882 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 488221005883 generic binding surface II; other site 488221005884 generic binding surface I; other site 488221005885 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 488221005886 Zn2+ binding site [ion binding]; other site 488221005887 Mg2+ binding site [ion binding]; other site 488221005888 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 488221005889 RmuC family; Region: RmuC; pfam02646 488221005890 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 488221005891 Thiamine pyrophosphokinase; Region: TPK; cd07995 488221005892 active site 488221005893 dimerization interface [polypeptide binding]; other site 488221005894 thiamine binding site [chemical binding]; other site 488221005895 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 488221005896 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 488221005897 substrate binding site [chemical binding]; other site 488221005898 hexamer interface [polypeptide binding]; other site 488221005899 metal binding site [ion binding]; metal-binding site 488221005900 GTPase RsgA; Reviewed; Region: PRK00098 488221005901 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 488221005902 RNA binding site [nucleotide binding]; other site 488221005903 homodimer interface [polypeptide binding]; other site 488221005904 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 488221005905 GTPase/Zn-binding domain interface [polypeptide binding]; other site 488221005906 GTP/Mg2+ binding site [chemical binding]; other site 488221005907 G4 box; other site 488221005908 G5 box; other site 488221005909 G1 box; other site 488221005910 Switch I region; other site 488221005911 G2 box; other site 488221005912 G3 box; other site 488221005913 Switch II region; other site 488221005914 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 488221005915 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 488221005916 S-adenosylmethionine binding site [chemical binding]; other site 488221005917 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 488221005918 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 488221005919 Walker A/P-loop; other site 488221005920 ATP binding site [chemical binding]; other site 488221005921 Q-loop/lid; other site 488221005922 ABC transporter signature motif; other site 488221005923 Walker B; other site 488221005924 D-loop; other site 488221005925 H-loop/switch region; other site 488221005926 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 488221005927 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 488221005928 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 488221005929 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 488221005930 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221005931 non-specific DNA binding site [nucleotide binding]; other site 488221005932 salt bridge; other site 488221005933 sequence-specific DNA binding site [nucleotide binding]; other site 488221005934 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 488221005935 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 488221005936 putative active site [active] 488221005937 putative metal binding site [ion binding]; other site 488221005938 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 488221005939 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 488221005940 active site 488221005941 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 488221005942 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 488221005943 aminotransferase AlaT; Validated; Region: PRK09265 488221005944 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 488221005945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221005946 homodimer interface [polypeptide binding]; other site 488221005947 catalytic residue [active] 488221005948 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 488221005949 Ligand Binding Site [chemical binding]; other site 488221005950 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 488221005951 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 488221005952 active site 488221005953 motif I; other site 488221005954 motif II; other site 488221005955 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 488221005956 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Exiguobacterium sibiricum YP_001813558.1 protein and its bacterial homologs; Region: NTP-PPase_YP_001813558; cd11545 488221005957 putative nucleotide binding site [chemical binding]; other site 488221005958 putative metal binding site [ion binding]; other site 488221005959 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 488221005960 active site 488221005961 homotetramer interface [polypeptide binding]; other site 488221005962 homodimer interface [polypeptide binding]; other site 488221005963 catabolite control protein A; Region: ccpA; TIGR01481 488221005964 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 488221005965 DNA binding site [nucleotide binding] 488221005966 domain linker motif; other site 488221005967 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 488221005968 dimerization interface [polypeptide binding]; other site 488221005969 effector binding site; other site 488221005970 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 488221005971 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 488221005972 active site 488221005973 phosphorylation site [posttranslational modification] 488221005974 intermolecular recognition site; other site 488221005975 dimerization interface [polypeptide binding]; other site 488221005976 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 488221005977 DNA binding residues [nucleotide binding] 488221005978 dimerization interface [polypeptide binding]; other site 488221005979 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 488221005980 Histidine kinase; Region: HisKA_3; pfam07730 488221005981 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 488221005982 ATP binding site [chemical binding]; other site 488221005983 Mg2+ binding site [ion binding]; other site 488221005984 G-X-G motif; other site 488221005985 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 488221005986 ABC-2 type transporter; Region: ABC2_membrane; cl17235 488221005987 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 488221005988 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 488221005989 Walker A/P-loop; other site 488221005990 ATP binding site [chemical binding]; other site 488221005991 Q-loop/lid; other site 488221005992 ABC transporter signature motif; other site 488221005993 Walker B; other site 488221005994 D-loop; other site 488221005995 H-loop/switch region; other site 488221005996 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 488221005997 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 488221005998 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 488221005999 putative homodimer interface [polypeptide binding]; other site 488221006000 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 488221006001 heterodimer interface [polypeptide binding]; other site 488221006002 homodimer interface [polypeptide binding]; other site 488221006003 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 488221006004 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 488221006005 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 488221006006 Transglycosylase; Region: Transgly; pfam00912 488221006007 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 488221006008 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 488221006009 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 488221006010 active site 488221006011 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 488221006012 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 488221006013 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 488221006014 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 488221006015 FtsX-like permease family; Region: FtsX; pfam02687 488221006016 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 488221006017 DDE superfamily endonuclease; Region: DDE_3; pfam13358 488221006018 Helix-turn-helix domain; Region: HTH_28; pfam13518 488221006019 Winged helix-turn helix; Region: HTH_29; pfam13551 488221006020 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 488221006021 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 488221006022 dimerization interface [polypeptide binding]; other site 488221006023 active site 488221006024 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 488221006025 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 488221006026 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221006027 Walker A/P-loop; other site 488221006028 ATP binding site [chemical binding]; other site 488221006029 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 488221006030 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488221006031 DNA-binding site [nucleotide binding]; DNA binding site 488221006032 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 488221006033 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 488221006034 beta-galactosidase; Region: BGL; TIGR03356 488221006035 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 488221006036 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 488221006037 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 488221006038 active site 488221006039 P-loop; other site 488221006040 phosphorylation site [posttranslational modification] 488221006041 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 488221006042 methionine cluster; other site 488221006043 active site 488221006044 phosphorylation site [posttranslational modification] 488221006045 metal binding site [ion binding]; metal-binding site 488221006046 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 488221006047 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 488221006048 putative catalytic cysteine [active] 488221006049 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 488221006050 putative active site [active] 488221006051 metal binding site [ion binding]; metal-binding site 488221006052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 488221006053 MORN repeat; Region: MORN; cl14787 488221006054 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 488221006055 Low molecular weight phosphatase family; Region: LMWPc; cd00115 488221006056 active site 488221006057 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 488221006058 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 488221006059 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 488221006060 TPP-binding site [chemical binding]; other site 488221006061 dimer interface [polypeptide binding]; other site 488221006062 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 488221006063 PYR/PP interface [polypeptide binding]; other site 488221006064 dimer interface [polypeptide binding]; other site 488221006065 TPP binding site [chemical binding]; other site 488221006066 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 488221006067 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 488221006068 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 488221006069 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 488221006070 PRD domain; Region: PRD; pfam00874 488221006071 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 488221006072 active site 488221006073 P-loop; other site 488221006074 phosphorylation site [posttranslational modification] 488221006075 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 488221006076 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 488221006077 intersubunit interface [polypeptide binding]; other site 488221006078 active site 488221006079 Zn2+ binding site [ion binding]; other site 488221006080 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 488221006081 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 488221006082 AP (apurinic/apyrimidinic) site pocket; other site 488221006083 DNA interaction; other site 488221006084 Metal-binding active site; metal-binding site 488221006085 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 488221006086 active site 488221006087 dimer interface [polypeptide binding]; other site 488221006088 magnesium binding site [ion binding]; other site 488221006089 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 488221006090 active site 488221006091 phosphorylation site [posttranslational modification] 488221006092 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 488221006093 active site 488221006094 P-loop; other site 488221006095 phosphorylation site [posttranslational modification] 488221006096 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 488221006097 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 488221006098 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 488221006099 G-X-X-G motif; other site 488221006100 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 488221006101 RxxxH motif; other site 488221006102 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 488221006103 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 488221006104 ribonuclease P; Reviewed; Region: rnpA; PRK00499 488221006105 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 488221006106 propionate/acetate kinase; Provisional; Region: PRK12379 488221006107 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 488221006108 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 488221006109 S-adenosylmethionine binding site [chemical binding]; other site 488221006110 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 488221006111 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 488221006112 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 488221006113 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 488221006114 Coenzyme A binding pocket [chemical binding]; other site 488221006115 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 488221006116 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 488221006117 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 488221006118 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 488221006119 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 488221006120 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 488221006121 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 488221006122 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 488221006123 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 488221006124 Walker A motif; other site 488221006125 ATP binding site [chemical binding]; other site 488221006126 Walker B motif; other site 488221006127 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 488221006128 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 488221006129 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 488221006130 catalytic Zn binding site [ion binding]; other site 488221006131 structural Zn binding site [ion binding]; other site 488221006132 NAD(P) binding site [chemical binding]; other site 488221006133 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 488221006134 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 488221006135 active site 488221006136 dimer interface [polypeptide binding]; other site 488221006137 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 488221006138 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 488221006139 catalytic triad [active] 488221006140 catalytic triad [active] 488221006141 oxyanion hole [active] 488221006142 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 488221006143 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 488221006144 Predicted integral membrane protein [Function unknown]; Region: COG5523 488221006145 Predicted membrane protein [Function unknown]; Region: COG3759 488221006146 Transcriptional regulators [Transcription]; Region: MarR; COG1846 488221006147 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 488221006148 putative DNA binding site [nucleotide binding]; other site 488221006149 putative Zn2+ binding site [ion binding]; other site 488221006150 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 488221006151 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 488221006152 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 488221006153 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 488221006154 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 488221006155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221006156 catalytic residue [active] 488221006157 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 488221006158 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 488221006159 active site 488221006160 catalytic motif [active] 488221006161 Zn binding site [ion binding]; other site 488221006162 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 488221006163 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 488221006164 active site 488221006165 HIGH motif; other site 488221006166 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 488221006167 active site 488221006168 KMSKS motif; other site 488221006169 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 488221006170 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 488221006171 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 488221006172 active site 488221006173 dimer interface [polypeptide binding]; other site 488221006174 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 488221006175 dimer interface [polypeptide binding]; other site 488221006176 active site 488221006177 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 488221006178 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 488221006179 catalytic triad [active] 488221006180 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 488221006181 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221006182 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221006183 Walker A/P-loop; other site 488221006184 ATP binding site [chemical binding]; other site 488221006185 Q-loop/lid; other site 488221006186 ABC transporter signature motif; other site 488221006187 Walker B; other site 488221006188 D-loop; other site 488221006189 H-loop/switch region; other site 488221006190 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 488221006191 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 488221006192 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 488221006193 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 488221006194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221006195 Walker A/P-loop; other site 488221006196 ATP binding site [chemical binding]; other site 488221006197 Q-loop/lid; other site 488221006198 ABC transporter signature motif; other site 488221006199 Walker B; other site 488221006200 D-loop; other site 488221006201 H-loop/switch region; other site 488221006202 DNA mismatch repair protein MutS; Region: mutS1; TIGR01070 488221006203 MutS domain I; Region: MutS_I; pfam01624 488221006204 MutS domain II; Region: MutS_II; pfam05188 488221006205 MutS domain III; Region: MutS_III; pfam05192 488221006206 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 488221006207 Walker A/P-loop; other site 488221006208 ATP binding site [chemical binding]; other site 488221006209 Q-loop/lid; other site 488221006210 ABC transporter signature motif; other site 488221006211 Walker B; other site 488221006212 D-loop; other site 488221006213 H-loop/switch region; other site 488221006214 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 488221006215 arginine repressor; Region: argR_whole; TIGR01529 488221006216 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 488221006217 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 488221006218 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 488221006219 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 488221006220 active site 488221006221 HIGH motif; other site 488221006222 KMSK motif region; other site 488221006223 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 488221006224 tRNA binding surface [nucleotide binding]; other site 488221006225 anticodon binding site; other site 488221006226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 488221006227 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 488221006228 Uncharacterized conserved protein [Function unknown]; Region: COG3542 488221006229 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488221006230 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 488221006231 active site 488221006232 phosphorylation site [posttranslational modification] 488221006233 intermolecular recognition site; other site 488221006234 dimerization interface [polypeptide binding]; other site 488221006235 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 488221006236 DNA binding site [nucleotide binding] 488221006237 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 488221006238 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 488221006239 dimer interface [polypeptide binding]; other site 488221006240 phosphorylation site [posttranslational modification] 488221006241 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 488221006242 ATP binding site [chemical binding]; other site 488221006243 G-X-G motif; other site 488221006244 PBP superfamily domain; Region: PBP_like_2; cl17296 488221006245 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 488221006246 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 488221006247 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221006248 dimer interface [polypeptide binding]; other site 488221006249 conserved gate region; other site 488221006250 putative PBP binding loops; other site 488221006251 ABC-ATPase subunit interface; other site 488221006252 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 488221006253 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221006254 dimer interface [polypeptide binding]; other site 488221006255 conserved gate region; other site 488221006256 putative PBP binding loops; other site 488221006257 ABC-ATPase subunit interface; other site 488221006258 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 488221006259 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 488221006260 Walker A/P-loop; other site 488221006261 ATP binding site [chemical binding]; other site 488221006262 Q-loop/lid; other site 488221006263 ABC transporter signature motif; other site 488221006264 Walker B; other site 488221006265 D-loop; other site 488221006266 H-loop/switch region; other site 488221006267 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 488221006268 PhoU domain; Region: PhoU; pfam01895 488221006269 PhoU domain; Region: PhoU; pfam01895 488221006270 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 488221006271 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 488221006272 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 488221006273 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 488221006274 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 488221006275 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 488221006276 active site 488221006277 tetramer interface; other site 488221006278 Rhomboid family; Region: Rhomboid; pfam01694 488221006279 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 488221006280 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 488221006281 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 488221006282 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 488221006283 metal binding site [ion binding]; metal-binding site 488221006284 putative dimer interface [polypeptide binding]; other site 488221006285 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 488221006286 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 488221006287 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 488221006288 trimer interface [polypeptide binding]; other site 488221006289 active site 488221006290 substrate binding site [chemical binding]; other site 488221006291 CoA binding site [chemical binding]; other site 488221006292 EamA-like transporter family; Region: EamA; pfam00892 488221006293 Transglycosylase; Region: Transgly; pfam00912 488221006294 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 488221006295 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 488221006296 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 488221006297 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 488221006298 active site 488221006299 HIGH motif; other site 488221006300 dimer interface [polypeptide binding]; other site 488221006301 KMSKS motif; other site 488221006302 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 488221006303 RNA binding surface [nucleotide binding]; other site 488221006304 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 488221006305 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 488221006306 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 488221006307 motif II; other site 488221006308 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 488221006309 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 488221006310 S-adenosylmethionine binding site [chemical binding]; other site 488221006311 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 488221006312 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 488221006313 4-alpha-glucanotransferase; Provisional; Region: PRK14508 488221006314 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 488221006315 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 488221006316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221006317 dimer interface [polypeptide binding]; other site 488221006318 conserved gate region; other site 488221006319 putative PBP binding loops; other site 488221006320 ABC-ATPase subunit interface; other site 488221006321 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488221006322 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221006323 dimer interface [polypeptide binding]; other site 488221006324 conserved gate region; other site 488221006325 putative PBP binding loops; other site 488221006326 ABC-ATPase subunit interface; other site 488221006327 Predicted integral membrane protein [Function unknown]; Region: COG5521 488221006328 Transcriptional regulators [Transcription]; Region: PurR; COG1609 488221006329 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 488221006330 DNA binding site [nucleotide binding] 488221006331 domain linker motif; other site 488221006332 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 488221006333 putative dimerization interface [polypeptide binding]; other site 488221006334 putative ligand binding site [chemical binding]; other site 488221006335 Uncharacterized conserved protein [Function unknown]; Region: COG1284 488221006336 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 488221006337 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 488221006338 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 488221006339 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 488221006340 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 488221006341 dimer interface [polypeptide binding]; other site 488221006342 anticodon binding site; other site 488221006343 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 488221006344 homodimer interface [polypeptide binding]; other site 488221006345 motif 1; other site 488221006346 active site 488221006347 motif 2; other site 488221006348 GAD domain; Region: GAD; pfam02938 488221006349 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 488221006350 motif 3; other site 488221006351 CAAX protease self-immunity; Region: Abi; pfam02517 488221006352 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 488221006353 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 488221006354 non-specific DNA binding site [nucleotide binding]; other site 488221006355 salt bridge; other site 488221006356 sequence-specific DNA binding site [nucleotide binding]; other site 488221006357 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 488221006358 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 488221006359 dimer interface [polypeptide binding]; other site 488221006360 motif 1; other site 488221006361 active site 488221006362 motif 2; other site 488221006363 motif 3; other site 488221006364 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 488221006365 anticodon binding site; other site 488221006366 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 488221006367 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 488221006368 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 488221006369 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 488221006370 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 488221006371 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 488221006372 motif II; other site 488221006373 D-mannonate oxidoreductase; Provisional; Region: PRK08277 488221006374 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 488221006375 putative NAD(P) binding site [chemical binding]; other site 488221006376 active site 488221006377 mannonate dehydratase; Provisional; Region: PRK03906 488221006378 mannonate dehydratase; Region: uxuA; TIGR00695 488221006379 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 488221006380 Glucuronate isomerase; Region: UxaC; pfam02614 488221006381 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 488221006382 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 488221006383 active site 488221006384 intersubunit interface [polypeptide binding]; other site 488221006385 catalytic residue [active] 488221006386 Transcriptional regulators [Transcription]; Region: FadR; COG2186 488221006387 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 488221006388 DNA-binding site [nucleotide binding]; DNA binding site 488221006389 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 488221006390 beta-D-glucuronidase; Provisional; Region: PRK10150 488221006391 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 488221006392 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 488221006393 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 488221006394 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 488221006395 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 488221006396 substrate binding site [chemical binding]; other site 488221006397 ATP binding site [chemical binding]; other site 488221006398 MFS/sugar transport protein; Region: MFS_2; pfam13347 488221006399 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 488221006400 potential frameshift: common BLAST hit: gi|116627891|ref|YP_820510.1| competence associated membrane nuclease 488221006401 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 488221006402 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 488221006403 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 488221006404 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 488221006405 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 488221006406 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 488221006407 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 488221006408 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 488221006409 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 488221006410 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 488221006411 PYR/PP interface [polypeptide binding]; other site 488221006412 dimer interface [polypeptide binding]; other site 488221006413 TPP binding site [chemical binding]; other site 488221006414 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 488221006415 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 488221006416 TPP-binding site [chemical binding]; other site 488221006417 dimer interface [polypeptide binding]; other site 488221006418 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 488221006419 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 488221006420 active site 488221006421 P-loop; other site 488221006422 phosphorylation site [posttranslational modification] 488221006423 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 488221006424 PRD domain; Region: PRD; pfam00874 488221006425 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 488221006426 active site 488221006427 P-loop; other site 488221006428 phosphorylation site [posttranslational modification] 488221006429 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 488221006430 active site 488221006431 phosphorylation site [posttranslational modification] 488221006432 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 488221006433 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 488221006434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 488221006435 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 488221006436 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 488221006437 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 488221006438 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221006439 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006440 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006441 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006442 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006443 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006444 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006445 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006446 Divergent AAA domain; Region: AAA_4; pfam04326 488221006447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 488221006448 DDE superfamily endonuclease; Region: DDE_4; cl17710 488221006449 Glycosyl hydrolase family 20 (GH20) catalytic domain of N-acetyl-beta-D-glucosaminidase (GcnA, also known as BhsA) and related proteins. GcnA is an exoglucosidase which cleaves N-acetyl-beta-D-galactosamine (NAG) and N-acetyl-beta-D-galactosamine...; Region: GH20_GcnA-like; cd06565 488221006450 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 488221006451 putative active site [active] 488221006452 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 488221006453 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 488221006454 nucleotide binding site [chemical binding]; other site 488221006455 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 488221006456 N-terminal catalytic domain of SPGH38, a putative alpha-mannosidase of Streptococcus pyogenes, and its prokaryotic homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_SpGH38_like; cd10814 488221006457 active site 488221006458 metal binding site [ion binding]; metal-binding site 488221006459 homodimer interface [polypeptide binding]; other site 488221006460 catalytic site [active] 488221006461 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 488221006462 Uncharacterized conserved protein [Function unknown]; Region: COG3538 488221006463 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 488221006464 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 488221006465 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 488221006466 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 488221006467 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 488221006468 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 488221006469 arginine deiminase; Provisional; Region: PRK01388 488221006470 ornithine carbamoyltransferase; Validated; Region: PRK02102 488221006471 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 488221006472 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 488221006473 carbamate kinase; Reviewed; Region: PRK12686 488221006474 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 488221006475 putative substrate binding site [chemical binding]; other site 488221006476 nucleotide binding site [chemical binding]; other site 488221006477 nucleotide binding site [chemical binding]; other site 488221006478 homodimer interface [polypeptide binding]; other site 488221006479 Predicted membrane protein [Function unknown]; Region: COG1288 488221006480 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 488221006481 hypothetical protein; Provisional; Region: PRK07205 488221006482 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 488221006483 active site 488221006484 metal binding site [ion binding]; metal-binding site 488221006485 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 488221006486 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 488221006487 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 488221006488 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 488221006489 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 488221006490 dimer interface [polypeptide binding]; other site 488221006491 active site 488221006492 metal binding site [ion binding]; metal-binding site 488221006493 L-fucose isomerase; Provisional; Region: fucI; PRK10991 488221006494 L-fucose isomerase (FucIase); FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose during glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in blood group...; Region: L-fucose_isomerase; cd03556 488221006495 hexamer (dimer of trimers) interface [polypeptide binding]; other site 488221006496 trimer interface [polypeptide binding]; other site 488221006497 substrate binding site [chemical binding]; other site 488221006498 Mn binding site [ion binding]; other site 488221006499 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 488221006500 intersubunit interface [polypeptide binding]; other site 488221006501 active site 488221006502 Zn2+ binding site [ion binding]; other site 488221006503 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 488221006504 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 488221006505 Glycosyl hydrolase family 98; Region: Glyco_hydro_98M; pfam08306 488221006506 Glycosyl hydrolase family 98 C-terminal domain; Region: Glyco_hydro_98C; pfam08307 488221006507 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 488221006508 Melibiase; Region: Melibiase; pfam02065 488221006509 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 488221006510 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 488221006511 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 488221006512 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488221006513 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221006514 dimer interface [polypeptide binding]; other site 488221006515 conserved gate region; other site 488221006516 putative PBP binding loops; other site 488221006517 ABC-ATPase subunit interface; other site 488221006518 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 488221006519 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 488221006520 dimer interface [polypeptide binding]; other site 488221006521 conserved gate region; other site 488221006522 putative PBP binding loops; other site 488221006523 ABC-ATPase subunit interface; other site 488221006524 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 488221006525 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 488221006526 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 488221006527 N- and C-terminal domain interface [polypeptide binding]; other site 488221006528 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 488221006529 active site 488221006530 putative catalytic site [active] 488221006531 metal binding site [ion binding]; metal-binding site 488221006532 ATP binding site [chemical binding]; other site 488221006533 carbohydrate binding site [chemical binding]; other site 488221006534 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 488221006535 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 488221006536 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 488221006537 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 488221006538 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 488221006539 metal binding site [ion binding]; metal-binding site 488221006540 Predicted periplasmic or secreted protein [General function prediction only]; Region: COG3443 488221006541 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 488221006542 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 488221006543 ABC-ATPase subunit interface; other site 488221006544 dimer interface [polypeptide binding]; other site 488221006545 putative PBP binding regions; other site 488221006546 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 488221006547 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 488221006548 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 488221006549 putative DNA binding site [nucleotide binding]; other site 488221006550 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 488221006551 DltD N-terminal region; Region: DltD_N; pfam04915 488221006552 DltD central region; Region: DltD_M; pfam04918 488221006553 DltD C-terminal region; Region: DltD_C; pfam04914 488221006554 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 488221006555 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 488221006556 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 488221006557 acyl-activating enzyme (AAE) consensus motif; other site 488221006558 AMP binding site [chemical binding]; other site 488221006559 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 488221006560 putative substrate translocation pore; other site 488221006561 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 488221006562 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 488221006563 putative active site [active] 488221006564 putative NTP binding site [chemical binding]; other site 488221006565 putative nucleic acid binding site [nucleotide binding]; other site 488221006566 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 488221006567 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 488221006568 amphipathic channel; other site 488221006569 Asn-Pro-Ala signature motifs; other site 488221006570 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 488221006571 glycerol kinase; Provisional; Region: glpK; PRK00047 488221006572 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 488221006573 N- and C-terminal domain interface [polypeptide binding]; other site 488221006574 active site 488221006575 MgATP binding site [chemical binding]; other site 488221006576 catalytic site [active] 488221006577 metal binding site [ion binding]; metal-binding site 488221006578 glycerol binding site [chemical binding]; other site 488221006579 homotetramer interface [polypeptide binding]; other site 488221006580 homodimer interface [polypeptide binding]; other site 488221006581 FBP binding site [chemical binding]; other site 488221006582 protein IIAGlc interface [polypeptide binding]; other site 488221006583 Mga helix-turn-helix domain; Region: Mga; pfam05043 488221006584 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 488221006585 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 488221006586 dimerization interface [polypeptide binding]; other site 488221006587 domain crossover interface; other site 488221006588 redox-dependent activation switch; other site 488221006589 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 488221006590 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 488221006591 FMN binding site [chemical binding]; other site 488221006592 active site 488221006593 catalytic residues [active] 488221006594 substrate binding site [chemical binding]; other site 488221006595 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 488221006596 RICH domain; Region: RICH; pfam05062 488221006597 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221006598 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006599 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006600 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006601 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006602 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006603 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006604 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 488221006605 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 488221006607 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 488221006608 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 488221006609 dimerization interface [polypeptide binding]; other site 488221006610 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 488221006611 dimer interface [polypeptide binding]; other site 488221006612 phosphorylation site [posttranslational modification] 488221006613 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 488221006614 ATP binding site [chemical binding]; other site 488221006615 Mg2+ binding site [ion binding]; other site 488221006616 G-X-G motif; other site 488221006617 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 488221006618 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 488221006619 active site 488221006620 phosphorylation site [posttranslational modification] 488221006621 intermolecular recognition site; other site 488221006622 dimerization interface [polypeptide binding]; other site 488221006623 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 488221006624 DNA binding site [nucleotide binding] 488221006625 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 488221006626 Clp amino terminal domain; Region: Clp_N; pfam02861 488221006627 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221006628 Walker A motif; other site 488221006629 ATP binding site [chemical binding]; other site 488221006630 Walker B motif; other site 488221006631 arginine finger; other site 488221006632 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 488221006633 Walker A motif; other site 488221006634 ATP binding site [chemical binding]; other site 488221006635 Walker B motif; other site 488221006636 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 488221006637 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 488221006638 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 488221006639 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 488221006640 Walker A/P-loop; other site 488221006641 ATP binding site [chemical binding]; other site 488221006642 Q-loop/lid; other site 488221006643 ABC transporter signature motif; other site 488221006644 Walker B; other site 488221006645 D-loop; other site 488221006646 H-loop/switch region; other site 488221006647 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 488221006648 NMT1/THI5 like; Region: NMT1; pfam09084 488221006649 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 488221006650 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 488221006651 putative PBP binding loops; other site 488221006652 ABC-ATPase subunit interface; other site 488221006653 Uncharacterized conserved protein [Function unknown]; Region: COG0011 488221006654 Surface antigen [General function prediction only]; Region: COG3942 488221006655 CHAP domain; Region: CHAP; pfam05257 488221006656 Bacterial SH3 domain; Region: SH3_5; pfam08460 488221006657 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 488221006658 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 488221006659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 488221006660 replicative DNA helicase; Provisional; Region: PRK05748 488221006661 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 488221006662 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 488221006663 Walker A motif; other site 488221006664 ATP binding site [chemical binding]; other site 488221006665 Walker B motif; other site 488221006666 DNA binding loops [nucleotide binding] 488221006667 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 488221006668 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 488221006669 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 488221006670 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 488221006671 DHH family; Region: DHH; pfam01368 488221006672 DHHA1 domain; Region: DHHA1; pfam02272 488221006673 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 488221006674 30S subunit binding site; other site 488221006675 comF family protein; Region: comF; TIGR00201 488221006676 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 488221006677 active site 488221006678 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 488221006679 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 488221006680 ATP binding site [chemical binding]; other site 488221006681 putative Mg++ binding site [ion binding]; other site 488221006682 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 488221006683 nucleotide binding region [chemical binding]; other site 488221006684 ATP-binding site [chemical binding]; other site 488221006685 Uncharacterized conserved protein [Function unknown]; Region: COG1739 488221006686 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 488221006687 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 488221006688 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 488221006689 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 488221006690 dimer interface [polypeptide binding]; other site 488221006691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 488221006692 catalytic residue [active] 488221006693 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 488221006694 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 488221006695 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 488221006696 DDE superfamily endonuclease; Region: DDE_3; pfam13358 488221006697 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 488221006698 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 488221006699 elongation factor Ts; Provisional; Region: tsf; PRK09377 488221006700 UBA/TS-N domain; Region: UBA; pfam00627 488221006701 Elongation factor TS; Region: EF_TS; pfam00889 488221006702 Elongation factor TS; Region: EF_TS; pfam00889 488221006703 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 488221006704 rRNA interaction site [nucleotide binding]; other site 488221006705 S8 interaction site; other site 488221006706 putative laminin-1 binding site; other site 488221006707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 488221006708 Septum formation initiator; Region: DivIC; cl17659 488221006709 Surface antigen [General function prediction only]; Region: COG3942 488221006710 CHAP domain; Region: CHAP; pfam05257 488221006711 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 488221006712 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 488221006713 rod shape-determining protein MreC; Region: MreC; pfam04085 488221006714 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 488221006715 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 488221006716 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 488221006717 Walker A/P-loop; other site 488221006718 ATP binding site [chemical binding]; other site 488221006719 Q-loop/lid; other site 488221006720 ABC transporter signature motif; other site 488221006721 Walker B; other site 488221006722 D-loop; other site 488221006723 H-loop/switch region; other site 488221006724 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 488221006725 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 488221006726 Walker A/P-loop; other site 488221006727 ATP binding site [chemical binding]; other site 488221006728 Q-loop/lid; other site 488221006729 ABC transporter signature motif; other site 488221006730 Walker B; other site 488221006731 D-loop; other site 488221006732 H-loop/switch region; other site 488221006733 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 488221006734 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 488221006735 Helix-turn-helix domain; Region: HTH_25; pfam13413 488221006736 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 488221006737 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 488221006738 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 488221006739 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 488221006740 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 488221006741 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 488221006742 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 488221006743 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 488221006744 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 488221006745 Walker A/P-loop; other site 488221006746 ATP binding site [chemical binding]; other site 488221006747 Q-loop/lid; other site 488221006748 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 488221006749 ABC transporter signature motif; other site 488221006750 Walker B; other site 488221006751 D-loop; other site 488221006752 H-loop/switch region; other site 488221006753 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 488221006754 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 488221006755 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 488221006756 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 488221006757 active site 488221006758 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 488221006759 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 488221006760 active site 488221006761 HIGH motif; other site 488221006762 dimer interface [polypeptide binding]; other site 488221006763 KMSKS motif; other site 488221006764 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 488221006765 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221006766 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221006767 ABC transporter; Region: ABC_tran_2; pfam12848 488221006768 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 488221006769 Predicted membrane protein [Function unknown]; Region: COG4485 488221006770 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 488221006771 Predicted membrane protein [Function unknown]; Region: COG1511 488221006772 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 488221006773 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 488221006774 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 488221006775 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 488221006776 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 488221006777 active site 488221006778 phosphorylation site [posttranslational modification] 488221006779 intermolecular recognition site; other site 488221006780 dimerization interface [polypeptide binding]; other site 488221006781 LytTr DNA-binding domain; Region: LytTR; pfam04397 488221006782 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 488221006783 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 488221006784 COMC family; Region: ComC; pfam03047 488221006785 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 488221006786 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 488221006787 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 488221006788 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 488221006789 protein binding site [polypeptide binding]; other site 488221006790 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 488221006791 ParB-like nuclease domain; Region: ParBc; pfam02195 488221006792 KorB domain; Region: KorB; pfam08535