-- dump date 20140620_085250 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1130804000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1130804000002 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 1130804000003 Walker A motif; other site 1130804000004 ATP binding site [chemical binding]; other site 1130804000005 Walker B motif; other site 1130804000006 arginine finger; other site 1130804000007 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 1130804000008 DnaA box-binding interface [nucleotide binding]; other site 1130804000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 1130804000010 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 1130804000011 putative DNA binding surface [nucleotide binding]; other site 1130804000012 dimer interface [polypeptide binding]; other site 1130804000013 beta-clamp/clamp loader binding surface; other site 1130804000014 beta-clamp/translesion DNA polymerase binding surface; other site 1130804000015 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 1130804000016 Protein of unknown function (DUF1492); Region: DUF1492; pfam07374 1130804000017 D5 N terminal like; Region: D5_N; smart00885 1130804000018 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1130804000019 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 1130804000020 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; cl17220 1130804000021 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1130804000022 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 1130804000023 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1130804000024 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 1130804000025 sequence-specific DNA binding site [nucleotide binding]; other site 1130804000026 salt bridge; other site 1130804000027 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1130804000028 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 1130804000029 non-specific DNA binding site [nucleotide binding]; other site 1130804000030 salt bridge; other site 1130804000031 sequence-specific DNA binding site [nucleotide binding]; other site 1130804000032 Predicted transcriptional regulator [Transcription]; Region: COG2932 1130804000033 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1130804000034 Catalytic site [active] 1130804000035 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1130804000036 Fic family protein [Function unknown]; Region: COG3177 1130804000037 Fic/DOC family; Region: Fic; pfam02661 1130804000038 Replication protein; Region: Rep_1; cl02412 1130804000039 BRO family, N-terminal domain; Region: Bro-N; pfam02498 1130804000040 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1130804000041 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 1130804000042 Int/Topo IB signature motif; other site 1130804000043 GTP-binding protein YchF; Reviewed; Region: PRK09601 1130804000044 YchF GTPase; Region: YchF; cd01900 1130804000045 G1 box; other site 1130804000046 GTP/Mg2+ binding site [chemical binding]; other site 1130804000047 Switch I region; other site 1130804000048 G2 box; other site 1130804000049 Switch II region; other site 1130804000050 G3 box; other site 1130804000051 G4 box; other site 1130804000052 G5 box; other site 1130804000053 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 1130804000054 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 1130804000055 putative active site [active] 1130804000056 catalytic residue [active] 1130804000057 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1130804000058 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1130804000059 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 1130804000060 ATP binding site [chemical binding]; other site 1130804000061 putative Mg++ binding site [ion binding]; other site 1130804000062 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 1130804000063 nucleotide binding region [chemical binding]; other site 1130804000064 ATP-binding site [chemical binding]; other site 1130804000065 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1130804000066 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 1130804000067 RNA binding surface [nucleotide binding]; other site 1130804000068 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1130804000069 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1130804000070 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1130804000071 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1130804000072 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 1130804000073 Ligand Binding Site [chemical binding]; other site 1130804000074 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1130804000075 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1130804000076 active site 1130804000077 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1130804000078 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 1130804000079 Walker A motif; other site 1130804000080 ATP binding site [chemical binding]; other site 1130804000081 Walker B motif; other site 1130804000082 arginine finger; other site 1130804000083 Peptidase family M41; Region: Peptidase_M41; pfam01434 1130804000084 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1130804000085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804000086 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804000087 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1130804000088 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 1130804000089 GDP-binding site [chemical binding]; other site 1130804000090 ACT binding site; other site 1130804000091 IMP binding site; other site 1130804000092 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 1130804000093 nucleoside/Zn binding site; other site 1130804000094 dimer interface [polypeptide binding]; other site 1130804000095 catalytic motif [active] 1130804000096 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 1130804000097 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 1130804000098 active site 1130804000099 DNA binding site [nucleotide binding] 1130804000100 Int/Topo IB signature motif; other site 1130804000101 Domain of unknown function (DUF955); Region: DUF955; cl01076 1130804000102 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1130804000103 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 1130804000104 non-specific DNA binding site [nucleotide binding]; other site 1130804000105 salt bridge; other site 1130804000106 sequence-specific DNA binding site [nucleotide binding]; other site 1130804000107 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 1130804000108 non-specific DNA binding site [nucleotide binding]; other site 1130804000109 salt bridge; other site 1130804000110 sequence-specific DNA binding site [nucleotide binding]; other site 1130804000111 Phage anti-repressor protein [Transcription]; Region: COG3561 1130804000112 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1130804000113 Helix-turn-helix domain; Region: HTH_36; pfam13730 1130804000114 ERF superfamily; Region: ERF; pfam04404 1130804000115 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 1130804000116 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1130804000117 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 1130804000118 dimer interface [polypeptide binding]; other site 1130804000119 ssDNA binding site [nucleotide binding]; other site 1130804000120 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1130804000121 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1130804000122 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 1130804000123 cofactor binding site; other site 1130804000124 DNA binding site [nucleotide binding] 1130804000125 substrate interaction site [chemical binding]; other site 1130804000126 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 1130804000127 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1130804000128 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1130804000129 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 1130804000130 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1130804000131 ParB-like nuclease domain; Region: ParBc; pfam02195 1130804000132 Domain of unknown function (DUF4417); Region: DUF4417; pfam14386 1130804000133 Phage terminase large subunit; Region: Terminase_3; cl12054 1130804000134 Terminase-like family; Region: Terminase_6; pfam03237 1130804000135 phage portal protein, putative, A118 family; Region: A118_put_portal; TIGR01542 1130804000136 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1130804000137 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 1130804000138 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 1130804000139 Minor capsid protein; Region: Minor_capsid_2; pfam11114 1130804000140 Minor capsid protein from bacteriophage; Region: Minor_capsid_3; pfam12691 1130804000141 Bacteriophage Gp15 protein; Region: Phage_Gp15; pfam06854 1130804000142 tape measure domain; Region: tape_meas_nterm; TIGR02675 1130804000143 Phage tail protein; Region: Sipho_tail; pfam05709 1130804000144 Phage tail protein; Region: Sipho_tail; cl17486 1130804000145 Siphovirus protein of unknown function (DUF859); Region: DUF859; pfam05895 1130804000146 Siphovirus protein of unknown function (DUF859); Region: DUF859; pfam05895 1130804000147 toxin secretion/phage lysis holin; Region: holin_tox_secr; TIGR01593 1130804000148 Phage holin protein (Holin_LLH); Region: Holin_LLH; pfam09682 1130804000149 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804000150 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 1130804000151 amidase catalytic site [active] 1130804000152 Zn binding residues [ion binding]; other site 1130804000153 substrate binding site [chemical binding]; other site 1130804000154 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1130804000155 trimer interface [polypeptide binding]; other site 1130804000156 active site 1130804000157 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 1130804000158 catalytic core [active] 1130804000159 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 1130804000160 DNA repair protein RadA; Provisional; Region: PRK11823 1130804000161 Walker A motif; other site 1130804000162 ATP binding site [chemical binding]; other site 1130804000163 Walker B motif; other site 1130804000164 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1130804000165 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 1130804000166 active site clefts [active] 1130804000167 zinc binding site [ion binding]; other site 1130804000168 dimer interface [polypeptide binding]; other site 1130804000169 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 1130804000170 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 1130804000171 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1130804000172 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1130804000173 active site 1130804000174 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1130804000175 DNA polymerase I; Provisional; Region: PRK05755 1130804000176 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1130804000177 active site 1130804000178 metal binding site 1 [ion binding]; metal-binding site 1130804000179 putative 5' ssDNA interaction site; other site 1130804000180 metal binding site 3; metal-binding site 1130804000181 metal binding site 2 [ion binding]; metal-binding site 1130804000182 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1130804000183 putative DNA binding site [nucleotide binding]; other site 1130804000184 putative metal binding site [ion binding]; other site 1130804000185 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 1130804000186 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1130804000187 active site 1130804000188 DNA binding site [nucleotide binding] 1130804000189 catalytic site [active] 1130804000190 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1130804000191 Predicted membrane protein [Function unknown]; Region: COG2855 1130804000192 aromatic amino acid aminotransferase; Validated; Region: PRK07309 1130804000193 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 1130804000194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804000195 homodimer interface [polypeptide binding]; other site 1130804000196 catalytic residue [active] 1130804000197 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 1130804000198 Recombination protein O N terminal; Region: RecO_N; pfam11967 1130804000199 Recombination protein O C terminal; Region: RecO_C; pfam02565 1130804000200 putative phosphate acyltransferase; Provisional; Region: PRK05331 1130804000201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1130804000202 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1130804000203 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 1130804000204 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 1130804000205 putative active site [active] 1130804000206 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1130804000207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804000208 Walker A/P-loop; other site 1130804000209 ATP binding site [chemical binding]; other site 1130804000210 Q-loop/lid; other site 1130804000211 ABC transporter signature motif; other site 1130804000212 Walker B; other site 1130804000213 D-loop; other site 1130804000214 H-loop/switch region; other site 1130804000215 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 1130804000216 HlyD family secretion protein; Region: HlyD_3; pfam13437 1130804000217 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1130804000218 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1130804000219 ATP binding site [chemical binding]; other site 1130804000220 active site 1130804000221 substrate binding site [chemical binding]; other site 1130804000222 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 1130804000223 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 1130804000224 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 1130804000225 dimerization interface [polypeptide binding]; other site 1130804000226 ATP binding site [chemical binding]; other site 1130804000227 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 1130804000228 dimerization interface [polypeptide binding]; other site 1130804000229 ATP binding site [chemical binding]; other site 1130804000230 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1130804000231 putative active site [active] 1130804000232 catalytic triad [active] 1130804000233 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1130804000234 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 1130804000235 active site 1130804000236 tetramer interface [polypeptide binding]; other site 1130804000237 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1130804000238 active site 1130804000239 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1130804000240 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 1130804000241 dimerization interface [polypeptide binding]; other site 1130804000242 putative ATP binding site [chemical binding]; other site 1130804000243 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1130804000244 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1130804000245 active site 1130804000246 substrate binding site [chemical binding]; other site 1130804000247 cosubstrate binding site; other site 1130804000248 catalytic site [active] 1130804000249 VanZ like family; Region: VanZ; pfam04892 1130804000250 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1130804000251 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 1130804000252 purine monophosphate binding site [chemical binding]; other site 1130804000253 dimer interface [polypeptide binding]; other site 1130804000254 putative catalytic residues [active] 1130804000255 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1130804000256 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1130804000257 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1130804000258 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1130804000259 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1130804000260 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1130804000261 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1130804000262 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1130804000263 ATP-grasp domain; Region: ATP-grasp; pfam02222 1130804000264 adenylosuccinate lyase; Provisional; Region: PRK07492 1130804000265 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1130804000266 tetramer interface [polypeptide binding]; other site 1130804000267 active site 1130804000268 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1130804000269 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 1130804000270 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 1130804000271 active site 1130804000272 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 1130804000273 active site 1130804000274 G5 domain; Region: G5; pfam07501 1130804000275 G5 domain; Region: G5; pfam07501 1130804000276 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1130804000277 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1130804000278 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1130804000279 DNA-binding site [nucleotide binding]; DNA binding site 1130804000280 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1130804000281 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1130804000282 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 1130804000283 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 1130804000284 active site 1130804000285 phosphorylation site [posttranslational modification] 1130804000286 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1130804000287 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1130804000288 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 1130804000289 active pocket/dimerization site; other site 1130804000290 active site 1130804000291 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 1130804000292 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 1130804000293 dimer interface [polypeptide binding]; other site 1130804000294 active site 1130804000295 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 1130804000296 putative active site [active] 1130804000297 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1130804000298 active site 1130804000299 catalytic residues [active] 1130804000300 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1130804000301 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 1130804000302 putative metal binding site [ion binding]; other site 1130804000303 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 1130804000304 active site 1130804000305 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 1130804000306 putative homodimer interface [polypeptide binding]; other site 1130804000307 putative homotetramer interface [polypeptide binding]; other site 1130804000308 putative allosteric switch controlling residues; other site 1130804000309 putative metal binding site [ion binding]; other site 1130804000310 putative homodimer-homodimer interface [polypeptide binding]; other site 1130804000311 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 1130804000312 active site residue [active] 1130804000313 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 1130804000314 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1130804000315 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1130804000316 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1130804000317 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1130804000318 TrkA-N domain; Region: TrkA_N; pfam02254 1130804000319 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 1130804000320 active site 1130804000321 Fibronectin-binding repeat; Region: SSURE; pfam11966 1130804000322 Fibronectin-binding repeat; Region: SSURE; pfam11966 1130804000323 Fibronectin-binding repeat; Region: SSURE; pfam11966 1130804000324 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1130804000325 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 1130804000326 active site 1130804000327 phosphorylation site [posttranslational modification] 1130804000328 intermolecular recognition site; other site 1130804000329 dimerization interface [polypeptide binding]; other site 1130804000330 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 1130804000331 DNA binding site [nucleotide binding] 1130804000332 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1130804000333 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 1130804000334 dimerization interface [polypeptide binding]; other site 1130804000335 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 1130804000336 dimer interface [polypeptide binding]; other site 1130804000337 phosphorylation site [posttranslational modification] 1130804000338 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 1130804000339 ATP binding site [chemical binding]; other site 1130804000340 Mg2+ binding site [ion binding]; other site 1130804000341 G-X-G motif; other site 1130804000342 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1130804000343 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1130804000344 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 1130804000345 RNA binding surface [nucleotide binding]; other site 1130804000346 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1130804000347 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 1130804000348 dimer interface [polypeptide binding]; other site 1130804000349 conserved gate region; other site 1130804000350 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 1130804000351 ABC-ATPase subunit interface; other site 1130804000352 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1130804000353 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 1130804000354 dimer interface [polypeptide binding]; other site 1130804000355 conserved gate region; other site 1130804000356 putative PBP binding loops; other site 1130804000357 ABC-ATPase subunit interface; other site 1130804000358 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1130804000359 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 1130804000360 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1130804000361 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1130804000362 active site residue [active] 1130804000363 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 1130804000364 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 1130804000365 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804000366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1130804000367 Walker B; other site 1130804000368 D-loop; other site 1130804000369 H-loop/switch region; other site 1130804000370 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1130804000371 Predicted membrane protein [Function unknown]; Region: COG4709 1130804000372 Predicted transcriptional regulators [Transcription]; Region: COG1695 1130804000373 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1130804000374 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1130804000375 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 1130804000376 putative substrate translocation pore; other site 1130804000377 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 1130804000378 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1130804000379 Ligand binding site; other site 1130804000380 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1130804000381 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1130804000382 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1130804000383 NAD(P) binding site [chemical binding]; other site 1130804000384 homodimer interface [polypeptide binding]; other site 1130804000385 substrate binding site [chemical binding]; other site 1130804000386 active site 1130804000387 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1130804000388 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 1130804000389 motif II; other site 1130804000390 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1130804000391 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1130804000392 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1130804000393 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1130804000394 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1130804000395 putative L-serine binding site [chemical binding]; other site 1130804000396 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1130804000397 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1130804000398 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; pfam09683 1130804000399 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 1130804000400 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1130804000401 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1130804000402 Walker A/P-loop; other site 1130804000403 ATP binding site [chemical binding]; other site 1130804000404 Q-loop/lid; other site 1130804000405 ABC transporter signature motif; other site 1130804000406 Walker B; other site 1130804000407 D-loop; other site 1130804000408 H-loop/switch region; other site 1130804000409 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 1130804000410 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1130804000411 substrate binding pocket [chemical binding]; other site 1130804000412 membrane-bound complex binding site; other site 1130804000413 hinge residues; other site 1130804000414 Arginosuccinate synthase; Region: Arginosuc_synth; cl17227 1130804000415 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1130804000416 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804000417 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804000418 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804000419 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804000420 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804000421 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1130804000422 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804000423 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804000424 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1130804000425 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 1130804000426 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 1130804000427 nudix motif; other site 1130804000428 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1130804000429 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1130804000430 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1130804000431 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1130804000432 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1130804000433 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1130804000434 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1130804000435 hypothetical protein; Provisional; Region: PRK13667 1130804000436 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 1130804000437 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1130804000438 Glycoprotease family; Region: Peptidase_M22; pfam00814 1130804000439 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1130804000440 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804000441 Coenzyme A binding pocket [chemical binding]; other site 1130804000442 UGMP family protein; Validated; Region: PRK09604 1130804000443 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1130804000444 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1130804000445 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804000446 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804000447 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1130804000448 Helix-turn-helix domain; Region: HTH_38; pfam13936 1130804000449 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804000450 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 1130804000451 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1130804000452 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 1130804000453 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1130804000454 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 1130804000455 active site 1130804000456 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1130804000457 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1130804000458 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1130804000459 Walker A/P-loop; other site 1130804000460 ATP binding site [chemical binding]; other site 1130804000461 Q-loop/lid; other site 1130804000462 ABC transporter signature motif; other site 1130804000463 Walker B; other site 1130804000464 D-loop; other site 1130804000465 H-loop/switch region; other site 1130804000466 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 1130804000467 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1130804000468 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1130804000469 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1130804000470 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1130804000471 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 1130804000472 non-specific DNA binding site [nucleotide binding]; other site 1130804000473 salt bridge; other site 1130804000474 sequence-specific DNA binding site [nucleotide binding]; other site 1130804000475 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1130804000476 CAAX protease self-immunity; Region: Abi; pfam02517 1130804000477 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1130804000478 potential frameshift: common BLAST hit: gi|298501960|ref|YP_003723900.1| LIV-E family branched chain amino acid exporter AzlD 1130804000479 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1130804000480 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1130804000481 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1130804000482 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 1130804000483 substrate binding pocket [chemical binding]; other site 1130804000484 membrane-bound complex binding site; other site 1130804000485 hinge residues; other site 1130804000486 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1130804000487 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1130804000488 hypothetical protein; Provisional; Region: PRK06446 1130804000489 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 1130804000490 metal binding site [ion binding]; metal-binding site 1130804000491 dimer interface [polypeptide binding]; other site 1130804000492 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1130804000493 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1130804000494 Walker A/P-loop; other site 1130804000495 ATP binding site [chemical binding]; other site 1130804000496 Q-loop/lid; other site 1130804000497 ABC transporter signature motif; other site 1130804000498 Walker B; other site 1130804000499 D-loop; other site 1130804000500 H-loop/switch region; other site 1130804000501 NIL domain; Region: NIL; pfam09383 1130804000502 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 1130804000503 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 1130804000504 Predicted integral membrane protein [Function unknown]; Region: COG5578 1130804000505 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1130804000506 HAMP domain; Region: HAMP; pfam00672 1130804000507 Histidine kinase; Region: His_kinase; pfam06580 1130804000508 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 1130804000509 ATP binding site [chemical binding]; other site 1130804000510 Mg2+ binding site [ion binding]; other site 1130804000511 G-X-G motif; other site 1130804000512 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 1130804000513 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 1130804000514 active site 1130804000515 phosphorylation site [posttranslational modification] 1130804000516 intermolecular recognition site; other site 1130804000517 dimerization interface [polypeptide binding]; other site 1130804000518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1130804000519 flavoprotein NrdI; Provisional; Region: PRK02551 1130804000520 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804000521 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1130804000522 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 1130804000523 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1130804000524 LytTr DNA-binding domain; Region: LytTR; smart00850 1130804000525 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1130804000526 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 1130804000527 ATP binding site [chemical binding]; other site 1130804000528 Mg2+ binding site [ion binding]; other site 1130804000529 G-X-G motif; other site 1130804000530 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1130804000531 ATP binding site [chemical binding]; other site 1130804000532 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1130804000533 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 1130804000534 homopentamer interface [polypeptide binding]; other site 1130804000535 active site 1130804000536 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1130804000537 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1130804000538 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 1130804000539 dimerization interface [polypeptide binding]; other site 1130804000540 active site 1130804000541 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1130804000542 Lumazine binding domain; Region: Lum_binding; pfam00677 1130804000543 Lumazine binding domain; Region: Lum_binding; pfam00677 1130804000544 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1130804000545 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 1130804000546 catalytic motif [active] 1130804000547 Zn binding site [ion binding]; other site 1130804000548 RibD C-terminal domain; Region: RibD_C; cl17279 1130804000549 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1130804000550 RuvA N terminal domain; Region: RuvA_N; pfam01330 1130804000551 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1130804000552 CAAX protease self-immunity; Region: Abi; pfam02517 1130804000553 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1130804000554 putative dimer interface [polypeptide binding]; other site 1130804000555 catalytic triad [active] 1130804000556 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]; Region: COG4858 1130804000557 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1130804000558 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1130804000559 Cl binding site [ion binding]; other site 1130804000560 oligomer interface [polypeptide binding]; other site 1130804000561 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1130804000562 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 1130804000563 Int/Topo IB signature motif; other site 1130804000564 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1130804000565 Divergent AAA domain; Region: AAA_4; pfam04326 1130804000566 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1130804000567 Penicillinase repressor; Region: Pencillinase_R; cl17580 1130804000568 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 1130804000569 non-specific DNA binding site [nucleotide binding]; other site 1130804000570 salt bridge; other site 1130804000571 sequence-specific DNA binding site [nucleotide binding]; other site 1130804000572 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 1130804000573 sequence-specific DNA binding site [nucleotide binding]; other site 1130804000574 salt bridge; other site 1130804000575 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 1130804000576 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1130804000577 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 1130804000578 D5 N terminal like; Region: D5_N; smart00885 1130804000579 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1130804000580 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1130804000581 Protein of unknown function (DUF1492); Region: DUF1492; pfam07374 1130804000582 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1130804000583 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1130804000584 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1130804000585 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1130804000586 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1130804000587 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1130804000588 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1130804000589 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 1130804000590 active site 1130804000591 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 1130804000592 ArsC family; Region: ArsC; pfam03960 1130804000593 putative catalytic residues [active] 1130804000594 thiol/disulfide switch; other site 1130804000595 hypothetical protein; Provisional; Region: PRK05473 1130804000596 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1130804000597 hypothetical protein; Provisional; Region: PRK13678 1130804000598 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1130804000599 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1130804000600 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1130804000601 Bacterial lipoprotein; Region: DUF3642; pfam12182 1130804000602 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1130804000603 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1130804000604 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 1130804000605 putative active site [active] 1130804000606 catalytic site [active] 1130804000607 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 1130804000608 putative active site [active] 1130804000609 catalytic site [active] 1130804000610 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1130804000611 ATP cone domain; Region: ATP-cone; pfam03477 1130804000612 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1130804000613 effector binding site; other site 1130804000614 active site 1130804000615 Zn binding site [ion binding]; other site 1130804000616 glycine loop; other site 1130804000617 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1130804000618 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1130804000619 Predicted acetyltransferase [General function prediction only]; Region: COG3981 1130804000620 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1130804000621 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1130804000622 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 1130804000623 FeS/SAM binding site; other site 1130804000624 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 1130804000625 active site 1130804000626 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1130804000627 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1130804000628 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1130804000629 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1130804000630 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1130804000631 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1130804000632 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1130804000633 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1130804000634 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 1130804000635 putative translocon binding site; other site 1130804000636 protein-rRNA interface [nucleotide binding]; other site 1130804000637 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1130804000638 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 1130804000639 G-X-X-G motif; other site 1130804000640 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1130804000641 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 1130804000642 23S rRNA interface [nucleotide binding]; other site 1130804000643 5S rRNA interface [nucleotide binding]; other site 1130804000644 putative antibiotic binding site [chemical binding]; other site 1130804000645 L25 interface [polypeptide binding]; other site 1130804000646 L27 interface [polypeptide binding]; other site 1130804000647 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 1130804000648 23S rRNA interface [nucleotide binding]; other site 1130804000649 putative translocon interaction site; other site 1130804000650 signal recognition particle (SRP54) interaction site; other site 1130804000651 L23 interface [polypeptide binding]; other site 1130804000652 trigger factor interaction site; other site 1130804000653 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1130804000654 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1130804000655 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1130804000656 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1130804000657 RNA binding site [nucleotide binding]; other site 1130804000658 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1130804000659 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1130804000660 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1130804000661 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1130804000662 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1130804000663 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1130804000664 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1130804000665 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1130804000666 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 1130804000667 5S rRNA interface [nucleotide binding]; other site 1130804000668 L27 interface [polypeptide binding]; other site 1130804000669 23S rRNA interface [nucleotide binding]; other site 1130804000670 L5 interface [polypeptide binding]; other site 1130804000671 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1130804000672 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1130804000673 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1130804000674 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 1130804000675 23S rRNA binding site [nucleotide binding]; other site 1130804000676 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1130804000677 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1130804000678 SecY translocase; Region: SecY; pfam00344 1130804000679 adenylate kinase; Reviewed; Region: adk; PRK00279 1130804000680 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 1130804000681 AMP-binding site [chemical binding]; other site 1130804000682 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1130804000683 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 1130804000684 rRNA binding site [nucleotide binding]; other site 1130804000685 predicted 30S ribosome binding site; other site 1130804000686 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1130804000687 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1130804000688 30S ribosomal protein S11; Validated; Region: PRK05309 1130804000689 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1130804000690 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1130804000691 alphaNTD homodimer interface [polypeptide binding]; other site 1130804000692 alphaNTD - beta interaction site [polypeptide binding]; other site 1130804000693 alphaNTD - beta' interaction site [polypeptide binding]; other site 1130804000694 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1130804000695 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1130804000696 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1130804000697 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1130804000698 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 1130804000699 catalytic core [active] 1130804000700 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1130804000701 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 1130804000702 dimer interface [polypeptide binding]; other site 1130804000703 conserved gate region; other site 1130804000704 putative PBP binding loops; other site 1130804000705 ABC-ATPase subunit interface; other site 1130804000706 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 1130804000707 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1130804000708 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804000709 Walker A/P-loop; other site 1130804000710 ATP binding site [chemical binding]; other site 1130804000711 Q-loop/lid; other site 1130804000712 ABC transporter signature motif; other site 1130804000713 Walker B; other site 1130804000714 D-loop; other site 1130804000715 H-loop/switch region; other site 1130804000716 TOBE domain; Region: TOBE_2; pfam08402 1130804000717 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1130804000718 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1130804000719 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1130804000720 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1130804000721 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1130804000722 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1130804000723 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1130804000724 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1130804000725 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1130804000726 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1130804000727 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1130804000728 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 1130804000729 active site 1130804000730 methionine cluster; other site 1130804000731 phosphorylation site [posttranslational modification] 1130804000732 metal binding site [ion binding]; metal-binding site 1130804000733 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 1130804000734 active site 1130804000735 P-loop; other site 1130804000736 phosphorylation site [posttranslational modification] 1130804000737 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1130804000738 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1130804000739 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 1130804000740 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1130804000741 dimer interface [polypeptide binding]; other site 1130804000742 active site 1130804000743 glycine loop; other site 1130804000744 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1130804000745 active site 1130804000746 intersubunit interactions; other site 1130804000747 catalytic residue [active] 1130804000748 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1130804000749 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1130804000750 dimer interface [polypeptide binding]; other site 1130804000751 active site 1130804000752 metal binding site [ion binding]; metal-binding site 1130804000753 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1130804000754 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1130804000755 HIGH motif; other site 1130804000756 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1130804000757 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1130804000758 active site 1130804000759 KMSKS motif; other site 1130804000760 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1130804000761 tRNA binding surface [nucleotide binding]; other site 1130804000762 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1130804000763 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1130804000764 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1130804000765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804000766 Coenzyme A binding pocket [chemical binding]; other site 1130804000767 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1130804000768 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 1130804000769 Walker A motif; other site 1130804000770 ATP binding site [chemical binding]; other site 1130804000771 Walker B motif; other site 1130804000772 arginine finger; other site 1130804000773 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1130804000774 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1130804000775 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1130804000776 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 1130804000777 catalytic residue [active] 1130804000778 putative FPP diphosphate binding site; other site 1130804000779 putative FPP binding hydrophobic cleft; other site 1130804000780 dimer interface [polypeptide binding]; other site 1130804000781 putative IPP diphosphate binding site; other site 1130804000782 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1130804000783 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1130804000784 RIP metalloprotease RseP; Region: TIGR00054 1130804000785 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 1130804000786 active site 1130804000787 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 1130804000788 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 1130804000789 putative substrate binding region [chemical binding]; other site 1130804000790 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1130804000791 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 1130804000792 dimer interface [polypeptide binding]; other site 1130804000793 motif 1; other site 1130804000794 active site 1130804000795 motif 2; other site 1130804000796 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 1130804000797 putative deacylase active site [active] 1130804000798 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 1130804000799 active site 1130804000800 motif 3; other site 1130804000801 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 1130804000802 anticodon binding site; other site 1130804000803 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1130804000804 beta-galactosidase; Region: BGL; TIGR03356 1130804000805 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1130804000806 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 1130804000807 glutaminase active site [active] 1130804000808 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 1130804000809 dimer interface [polypeptide binding]; other site 1130804000810 active site 1130804000811 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 1130804000812 dimer interface [polypeptide binding]; other site 1130804000813 active site 1130804000814 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1130804000815 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1130804000816 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 1130804000817 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 1130804000818 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1130804000819 carbohydrate binding site [chemical binding]; other site 1130804000820 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1130804000821 carbohydrate binding site [chemical binding]; other site 1130804000822 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 1130804000823 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 1130804000824 Ca binding site [ion binding]; other site 1130804000825 active site 1130804000826 catalytic site [active] 1130804000827 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 1130804000828 S17 interaction site [polypeptide binding]; other site 1130804000829 S8 interaction site; other site 1130804000830 16S rRNA interaction site [nucleotide binding]; other site 1130804000831 streptomycin interaction site [chemical binding]; other site 1130804000832 23S rRNA interaction site [nucleotide binding]; other site 1130804000833 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1130804000834 30S ribosomal protein S7; Validated; Region: PRK05302 1130804000835 elongation factor G; Reviewed; Region: PRK00007 1130804000836 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1130804000837 G1 box; other site 1130804000838 putative GEF interaction site [polypeptide binding]; other site 1130804000839 GTP/Mg2+ binding site [chemical binding]; other site 1130804000840 Switch I region; other site 1130804000841 G2 box; other site 1130804000842 G3 box; other site 1130804000843 Switch II region; other site 1130804000844 G4 box; other site 1130804000845 G5 box; other site 1130804000846 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 1130804000847 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 1130804000848 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 1130804000849 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1130804000850 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1130804000851 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 1130804000852 generic binding surface II; other site 1130804000853 generic binding surface I; other site 1130804000854 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1130804000855 active site 1130804000856 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1130804000857 active site 1130804000858 catalytic site [active] 1130804000859 substrate binding site [chemical binding]; other site 1130804000860 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1130804000861 putative PHP Thumb interface [polypeptide binding]; other site 1130804000862 active site 1130804000863 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 1130804000864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1130804000865 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1130804000866 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1130804000867 Predicted membrane protein [Function unknown]; Region: COG2261 1130804000868 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1130804000869 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 1130804000870 RNA binding surface [nucleotide binding]; other site 1130804000871 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1130804000872 active site 1130804000873 uracil binding [chemical binding]; other site 1130804000874 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 1130804000875 trimer interface [polypeptide binding]; other site 1130804000876 active site 1130804000877 G bulge; other site 1130804000878 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1130804000879 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1130804000880 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1130804000881 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 1130804000882 active pocket/dimerization site; other site 1130804000883 active site 1130804000884 phosphorylation site [posttranslational modification] 1130804000885 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 1130804000886 active site 1130804000887 phosphorylation site [posttranslational modification] 1130804000888 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 1130804000889 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1130804000890 NAD binding site [chemical binding]; other site 1130804000891 substrate binding site [chemical binding]; other site 1130804000892 catalytic Zn binding site [ion binding]; other site 1130804000893 tetramer interface [polypeptide binding]; other site 1130804000894 structural Zn binding site [ion binding]; other site 1130804000895 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1130804000896 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 1130804000897 active site 1130804000898 motif I; other site 1130804000899 motif II; other site 1130804000900 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1130804000901 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1130804000902 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 1130804000903 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1130804000904 dihydropteroate synthase; Region: DHPS; TIGR01496 1130804000905 substrate binding pocket [chemical binding]; other site 1130804000906 dimer interface [polypeptide binding]; other site 1130804000907 inhibitor binding site; inhibition site 1130804000908 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1130804000909 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1130804000910 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1130804000911 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 1130804000912 homodecamer interface [polypeptide binding]; other site 1130804000913 GTP cyclohydrolase I; Provisional; Region: PLN03044 1130804000914 active site 1130804000915 putative catalytic site residues [active] 1130804000916 zinc binding site [ion binding]; other site 1130804000917 GTP-CH-I/GFRP interaction surface; other site 1130804000918 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 1130804000919 homooctamer interface [polypeptide binding]; other site 1130804000920 active site 1130804000921 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 1130804000922 catalytic center binding site [active] 1130804000923 ATP binding site [chemical binding]; other site 1130804000924 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 1130804000925 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 1130804000926 23S rRNA interface [nucleotide binding]; other site 1130804000927 L3 interface [polypeptide binding]; other site 1130804000928 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1130804000929 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 1130804000930 active site 1130804000931 DNA binding site [nucleotide binding] 1130804000932 Int/Topo IB signature motif; other site 1130804000933 Helix-turn-helix domain; Region: HTH_17; pfam12728 1130804000934 putative replication initiation protein; Region: PHA00330 1130804000935 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 1130804000936 active site 1130804000937 metal binding site [ion binding]; metal-binding site 1130804000938 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1130804000939 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1130804000940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1130804000941 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1130804000942 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1130804000943 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 1130804000944 beta-galactosidase; Region: BGL; TIGR03356 1130804000945 Uncharacterized conserved protein [Function unknown]; Region: COG4095 1130804000946 cellobiose phosphotransferase system IIB component; Reviewed; Region: celB; PRK09590 1130804000947 active site 1130804000948 P-loop; other site 1130804000949 phosphorylation site [posttranslational modification] 1130804000950 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1130804000951 HTH domain; Region: HTH_11; pfam08279 1130804000952 Mga helix-turn-helix domain; Region: Mga; pfam05043 1130804000953 PRD domain; Region: PRD; pfam00874 1130804000954 PRD domain; Region: PRD; pfam00874 1130804000955 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 1130804000956 active site 1130804000957 P-loop; other site 1130804000958 phosphorylation site [posttranslational modification] 1130804000959 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 1130804000960 active site 1130804000961 phosphorylation site [posttranslational modification] 1130804000962 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 1130804000963 methionine cluster; other site 1130804000964 active site 1130804000965 phosphorylation site [posttranslational modification] 1130804000966 metal binding site [ion binding]; metal-binding site 1130804000967 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1130804000968 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1130804000969 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1130804000970 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 1130804000971 putative active site [active] 1130804000972 putative catalytic site [active] 1130804000973 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 1130804000974 catalytic residues [active] 1130804000975 dimer interface [polypeptide binding]; other site 1130804000976 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 1130804000977 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 1130804000978 substrate binding site [chemical binding]; other site 1130804000979 catalytic residues [active] 1130804000980 Transposase IS200 like; Region: Y1_Tnp; cl00848 1130804000981 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1130804000982 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1130804000983 active site 1130804000984 intersubunit interface [polypeptide binding]; other site 1130804000985 catalytic residue [active] 1130804000986 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1130804000987 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 1130804000988 substrate binding site [chemical binding]; other site 1130804000989 ATP binding site [chemical binding]; other site 1130804000990 hypothetical protein; Provisional; Region: PRK09273 1130804000991 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 1130804000992 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 1130804000993 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 1130804000994 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1130804000995 NADP binding site [chemical binding]; other site 1130804000996 homodimer interface [polypeptide binding]; other site 1130804000997 active site 1130804000998 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 1130804000999 active pocket/dimerization site; other site 1130804001000 active site 1130804001001 phosphorylation site [posttranslational modification] 1130804001002 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 1130804001003 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 1130804001004 active site 1130804001005 phosphorylation site [posttranslational modification] 1130804001006 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1130804001007 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1130804001008 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 1130804001009 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1130804001010 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1130804001011 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1130804001012 DNA binding site [nucleotide binding] 1130804001013 domain linker motif; other site 1130804001014 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1130804001015 putative dimerization interface [polypeptide binding]; other site 1130804001016 putative ligand binding site [chemical binding]; other site 1130804001017 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 1130804001018 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1130804001019 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 1130804001020 non-specific DNA binding site [nucleotide binding]; other site 1130804001021 salt bridge; other site 1130804001022 sequence-specific DNA binding site [nucleotide binding]; other site 1130804001023 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1130804001024 MraW methylase family; Region: Methyltransf_5; pfam01795 1130804001025 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 1130804001026 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1130804001027 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1130804001028 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1130804001029 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 1130804001030 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 1130804001031 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1130804001032 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 1130804001033 Mg++ binding site [ion binding]; other site 1130804001034 putative catalytic motif [active] 1130804001035 putative substrate binding site [chemical binding]; other site 1130804001036 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 1130804001037 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1130804001038 Walker A motif; other site 1130804001039 ATP binding site [chemical binding]; other site 1130804001040 Walker B motif; other site 1130804001041 arginine finger; other site 1130804001042 UvrB/uvrC motif; Region: UVR; pfam02151 1130804001043 MoxR-like ATPases [General function prediction only]; Region: COG0714 1130804001044 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 1130804001045 Walker A motif; other site 1130804001046 ATP binding site [chemical binding]; other site 1130804001047 Walker B motif; other site 1130804001048 arginine finger; other site 1130804001049 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1130804001050 LuxS protein involved in autoinducer AI2 synthesis [Signal transduction mechanisms]; Region: LuxS; COG1854 1130804001051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 1130804001052 hypothetical protein; Provisional; Region: PRK13663 1130804001053 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1130804001054 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 1130804001055 Ca binding site [ion binding]; other site 1130804001056 active site 1130804001057 catalytic site [active] 1130804001058 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 1130804001059 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 1130804001060 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1130804001061 polysaccharide export protein, MPA1 family, Gram-positive type; Region: polys_exp_MPA1; TIGR01006 1130804001062 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1130804001063 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1130804001064 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 1130804001065 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1130804001066 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1130804001067 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1130804001068 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1130804001069 LicD family; Region: LicD; pfam04991 1130804001070 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 1130804001071 active site 1130804001072 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1130804001073 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 1130804001074 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1130804001075 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1130804001076 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 1130804001077 active site 1130804001078 homodimer interface [polypeptide binding]; other site 1130804001079 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1130804001080 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1130804001081 substrate binding site; other site 1130804001082 tetramer interface; other site 1130804001083 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1130804001084 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1130804001085 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1130804001086 NAD binding site [chemical binding]; other site 1130804001087 substrate binding site [chemical binding]; other site 1130804001088 homodimer interface [polypeptide binding]; other site 1130804001089 active site 1130804001090 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1130804001091 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1130804001092 NADP binding site [chemical binding]; other site 1130804001093 active site 1130804001094 putative substrate binding site [chemical binding]; other site 1130804001095 potential frameshift: common BLAST hit: gi|253755842|ref|YP_003028982.1| UDP-galactopyranose mutase 1130804001096 UDP-galactopyranose mutase; Region: GLF; pfam03275 1130804001097 UDP-galactopyranose mutase; Region: GLF; pfam03275 1130804001098 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1130804001099 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1130804001100 peptide binding site [polypeptide binding]; other site 1130804001101 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1130804001102 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 1130804001103 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1130804001104 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1130804001105 Transglycosylase; Region: Transgly; pfam00912 1130804001106 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1130804001107 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1130804001108 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1130804001109 hypothetical protein; Provisional; Region: PRK13660 1130804001110 cell division protein GpsB; Provisional; Region: PRK14127 1130804001111 DivIVA domain; Region: DivI1A_domain; TIGR03544 1130804001112 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1130804001113 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1130804001114 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 1130804001115 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1130804001116 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1130804001117 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1130804001118 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1130804001119 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 1130804001120 active site 1130804001121 phosphorylation site [posttranslational modification] 1130804001122 intermolecular recognition site; other site 1130804001123 dimerization interface [polypeptide binding]; other site 1130804001124 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 1130804001125 DNA binding site [nucleotide binding] 1130804001126 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804001127 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804001128 Lantibiotic modifying enzyme [Defense mechanisms]; Region: LcnDR2; COG4403 1130804001129 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 1130804001130 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804001131 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1130804001132 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1130804001133 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1130804001134 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 1130804001135 diphosphomevalonate decarboxylase; Region: PLN02407 1130804001136 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1130804001137 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1130804001138 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1130804001139 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 1130804001140 homotetramer interface [polypeptide binding]; other site 1130804001141 FMN binding site [chemical binding]; other site 1130804001142 homodimer contacts [polypeptide binding]; other site 1130804001143 putative active site [active] 1130804001144 putative substrate binding site [chemical binding]; other site 1130804001145 Predicted membrane protein [Function unknown]; Region: COG4758 1130804001146 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1130804001147 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1130804001148 Histidine kinase; Region: HisKA_3; pfam07730 1130804001149 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 1130804001150 ATP binding site [chemical binding]; other site 1130804001151 Mg2+ binding site [ion binding]; other site 1130804001152 G-X-G motif; other site 1130804001153 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1130804001154 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 1130804001155 active site 1130804001156 phosphorylation site [posttranslational modification] 1130804001157 intermolecular recognition site; other site 1130804001158 dimerization interface [polypeptide binding]; other site 1130804001159 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 1130804001160 DNA binding residues [nucleotide binding] 1130804001161 dimerization interface [polypeptide binding]; other site 1130804001162 A new structural DNA glycosylase; Region: AlkD_like; cl11434 1130804001163 A new structural DNA glycosylase; Region: AlkD_like; cl11434 1130804001164 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 1130804001165 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 1130804001166 DNA binding site [nucleotide binding] 1130804001167 active site 1130804001168 Int/Topo IB signature motif; other site 1130804001169 trigger factor; Provisional; Region: tig; PRK01490 1130804001170 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1130804001171 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1130804001172 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1130804001173 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 1130804001174 DNA binding site [nucleotide binding] 1130804001175 AAA domain; Region: AAA_30; pfam13604 1130804001176 Family description; Region: UvrD_C_2; pfam13538 1130804001177 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1130804001178 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 1130804001179 Catalytic site [active] 1130804001180 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 1130804001181 ribonuclease HIII; Provisional; Region: PRK00996 1130804001182 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1130804001183 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1130804001184 RNA/DNA hybrid binding site [nucleotide binding]; other site 1130804001185 active site 1130804001186 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1130804001187 Colicin V production protein; Region: Colicin_V; pfam02674 1130804001188 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 1130804001189 MutS domain III; Region: MutS_III; pfam05192 1130804001190 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1130804001191 Walker A/P-loop; other site 1130804001192 ATP binding site [chemical binding]; other site 1130804001193 Q-loop/lid; other site 1130804001194 ABC transporter signature motif; other site 1130804001195 Walker B; other site 1130804001196 D-loop; other site 1130804001197 H-loop/switch region; other site 1130804001198 Smr domain; Region: Smr; pfam01713 1130804001199 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1130804001200 amino acid carrier protein; Region: agcS; TIGR00835 1130804001201 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1130804001202 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1130804001203 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1130804001204 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 1130804001205 gating phenylalanine in ion channel; other site 1130804001206 seryl-tRNA synthetase; Provisional; Region: PRK05431 1130804001207 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1130804001208 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 1130804001209 dimer interface [polypeptide binding]; other site 1130804001210 active site 1130804001211 motif 1; other site 1130804001212 motif 2; other site 1130804001213 motif 3; other site 1130804001214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4687 1130804001215 aspartate kinase; Reviewed; Region: PRK09034 1130804001216 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 1130804001217 putative catalytic residues [active] 1130804001218 putative nucleotide binding site [chemical binding]; other site 1130804001219 putative aspartate binding site [chemical binding]; other site 1130804001220 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 1130804001221 allosteric regulatory residue; other site 1130804001222 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 1130804001223 enoyl-CoA hydratase; Provisional; Region: PRK07260 1130804001224 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 1130804001225 substrate binding site [chemical binding]; other site 1130804001226 oxyanion hole (OAH) forming residues; other site 1130804001227 trimer interface [polypeptide binding]; other site 1130804001228 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1130804001229 MarR family; Region: MarR_2; pfam12802 1130804001230 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1130804001231 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 1130804001232 dimer interface [polypeptide binding]; other site 1130804001233 active site 1130804001234 CoA binding pocket [chemical binding]; other site 1130804001235 acyl carrier protein; Provisional; Region: acpP; PRK00982 1130804001236 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1130804001237 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 1130804001238 FMN binding site [chemical binding]; other site 1130804001239 substrate binding site [chemical binding]; other site 1130804001240 putative catalytic residue [active] 1130804001241 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1130804001242 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1130804001243 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1130804001244 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1130804001245 NAD(P) binding site [chemical binding]; other site 1130804001246 homotetramer interface [polypeptide binding]; other site 1130804001247 homodimer interface [polypeptide binding]; other site 1130804001248 active site 1130804001249 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1130804001250 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 1130804001251 dimer interface [polypeptide binding]; other site 1130804001252 active site 1130804001253 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1130804001254 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 1130804001255 carboxyltransferase (CT) interaction site; other site 1130804001256 biotinylation site [posttranslational modification]; other site 1130804001257 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 1130804001258 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1130804001259 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1130804001260 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1130804001261 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1130804001262 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1130804001263 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1130804001264 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1130804001265 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 1130804001266 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1130804001267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1130804001268 elongation factor P; Validated; Region: PRK00529 1130804001269 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1130804001270 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 1130804001271 RNA binding site [nucleotide binding]; other site 1130804001272 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 1130804001273 RNA binding site [nucleotide binding]; other site 1130804001274 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1130804001275 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 1130804001276 putative NAD(P) binding site [chemical binding]; other site 1130804001277 catalytic Zn binding site [ion binding]; other site 1130804001278 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1130804001279 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1130804001280 GatB domain; Region: GatB_Yqey; pfam02637 1130804001281 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1130804001282 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1130804001283 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1130804001284 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1130804001285 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1130804001286 G1 box; other site 1130804001287 putative GEF interaction site [polypeptide binding]; other site 1130804001288 GTP/Mg2+ binding site [chemical binding]; other site 1130804001289 Switch I region; other site 1130804001290 G2 box; other site 1130804001291 G3 box; other site 1130804001292 Switch II region; other site 1130804001293 G4 box; other site 1130804001294 G5 box; other site 1130804001295 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 1130804001296 potential frameshift: common BLAST hit: gi|225856168|ref|YP_002737679.1| glycosyl transferase, family 8 1130804001297 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 1130804001298 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 1130804001299 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1130804001300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1130804001301 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 1130804001302 DAK2 domain; Region: Dak2; pfam02734 1130804001303 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 1130804001304 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1130804001305 PYR/PP interface [polypeptide binding]; other site 1130804001306 dimer interface [polypeptide binding]; other site 1130804001307 TPP binding site [chemical binding]; other site 1130804001308 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1130804001309 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 1130804001310 TPP-binding site [chemical binding]; other site 1130804001311 dimer interface [polypeptide binding]; other site 1130804001312 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1130804001313 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1130804001314 putative valine binding site [chemical binding]; other site 1130804001315 dimer interface [polypeptide binding]; other site 1130804001316 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1130804001317 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1130804001318 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1130804001319 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1130804001320 threonine dehydratase; Validated; Region: PRK08639 1130804001321 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 1130804001322 tetramer interface [polypeptide binding]; other site 1130804001323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804001324 catalytic residue [active] 1130804001325 C-terminal regulatory domain of Threonine dehydratase; Region: Thr_dehydrat_C; pfam00585 1130804001326 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1130804001327 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804001328 Walker A/P-loop; other site 1130804001329 ATP binding site [chemical binding]; other site 1130804001330 Q-loop/lid; other site 1130804001331 ABC transporter signature motif; other site 1130804001332 Walker B; other site 1130804001333 D-loop; other site 1130804001334 H-loop/switch region; other site 1130804001335 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 1130804001336 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1130804001337 substrate binding pocket [chemical binding]; other site 1130804001338 membrane-bound complex binding site; other site 1130804001339 hinge residues; other site 1130804001340 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 1130804001341 dimer interface [polypeptide binding]; other site 1130804001342 conserved gate region; other site 1130804001343 putative PBP binding loops; other site 1130804001344 ABC-ATPase subunit interface; other site 1130804001345 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1130804001346 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1130804001347 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1130804001348 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1130804001349 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1130804001350 active site 1130804001351 DNA polymerase IV; Validated; Region: PRK02406 1130804001352 DNA binding site [nucleotide binding] 1130804001353 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1130804001354 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1130804001355 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804001356 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804001357 Mga helix-turn-helix domain; Region: Mga; pfam05043 1130804001358 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 1130804001359 Cna protein B-type domain; Region: Cna_B; pfam05738 1130804001360 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1130804001361 metal ion-dependent adhesion site (MIDAS); other site 1130804001362 Cna protein B-type domain; Region: Cna_B; pfam05738 1130804001363 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1130804001364 Cna protein B-type domain; Region: Cna_B; pfam05738 1130804001365 Cna protein B-type domain; Region: Cna_B; pfam05738 1130804001366 Cna protein B-type domain; Region: Cna_B; pfam05738 1130804001367 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1130804001368 active site 1130804001369 catalytic site [active] 1130804001370 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1130804001371 active site 1130804001372 catalytic site [active] 1130804001373 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1130804001374 active site 1130804001375 catalytic site [active] 1130804001376 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804001377 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804001378 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1130804001379 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1130804001380 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 1130804001381 non-specific DNA interactions [nucleotide binding]; other site 1130804001382 DNA binding site [nucleotide binding] 1130804001383 sequence specific DNA binding site [nucleotide binding]; other site 1130804001384 putative cAMP binding site [chemical binding]; other site 1130804001385 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1130804001386 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1130804001387 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1130804001388 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1130804001389 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 1130804001390 methionine cluster; other site 1130804001391 active site 1130804001392 phosphorylation site [posttranslational modification] 1130804001393 metal binding site [ion binding]; metal-binding site 1130804001394 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 1130804001395 beta-galactosidase; Region: BGL; TIGR03356 1130804001396 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1130804001397 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1130804001398 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 1130804001399 active site 1130804001400 P-loop; other site 1130804001401 phosphorylation site [posttranslational modification] 1130804001402 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1130804001403 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1130804001404 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1130804001405 TrkA-N domain; Region: TrkA_N; pfam02254 1130804001406 TrkA-C domain; Region: TrkA_C; pfam02080 1130804001407 TrkA-N domain; Region: TrkA_N; pfam02254 1130804001408 TrkA-C domain; Region: TrkA_C; pfam02080 1130804001409 Uncharacterized conserved protein [Function unknown]; Region: COG1912 1130804001410 hypothetical protein; Provisional; Region: PRK13661 1130804001411 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1130804001412 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1130804001413 Walker A/P-loop; other site 1130804001414 ATP binding site [chemical binding]; other site 1130804001415 Q-loop/lid; other site 1130804001416 ABC transporter signature motif; other site 1130804001417 Walker B; other site 1130804001418 D-loop; other site 1130804001419 H-loop/switch region; other site 1130804001420 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 1130804001421 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1130804001422 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1130804001423 Walker A/P-loop; other site 1130804001424 ATP binding site [chemical binding]; other site 1130804001425 Q-loop/lid; other site 1130804001426 ABC transporter signature motif; other site 1130804001427 Walker B; other site 1130804001428 D-loop; other site 1130804001429 H-loop/switch region; other site 1130804001430 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1130804001431 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1130804001432 Predicted membrane protein [Function unknown]; Region: COG3601 1130804001433 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1130804001434 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 1130804001435 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1130804001436 active site 1130804001437 ParB-like nuclease domain; Region: ParBc; cl02129 1130804001438 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1130804001439 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1130804001440 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1130804001441 CTP synthetase; Validated; Region: pyrG; PRK05380 1130804001442 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 1130804001443 Catalytic site [active] 1130804001444 active site 1130804001445 UTP binding site [chemical binding]; other site 1130804001446 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1130804001447 active site 1130804001448 putative oxyanion hole; other site 1130804001449 catalytic triad [active] 1130804001450 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1130804001451 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1130804001452 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1130804001453 PhoU domain; Region: PhoU; pfam01895 1130804001454 PhoU domain; Region: PhoU; pfam01895 1130804001455 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 1130804001456 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 1130804001457 putative active site [active] 1130804001458 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1130804001459 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1130804001460 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1130804001461 G5 domain; Region: G5; pfam07501 1130804001462 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1130804001463 Phosphoglycerate kinase; Region: PGK; pfam00162 1130804001464 substrate binding site [chemical binding]; other site 1130804001465 hinge regions; other site 1130804001466 ADP binding site [chemical binding]; other site 1130804001467 catalytic site [active] 1130804001468 Predicted membrane protein [Function unknown]; Region: COG4129 1130804001469 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1130804001470 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1130804001471 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1130804001472 DNA binding residues [nucleotide binding] 1130804001473 putative dimer interface [polypeptide binding]; other site 1130804001474 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1130804001475 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1130804001476 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1130804001477 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1130804001478 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1130804001479 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1130804001480 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1130804001481 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1130804001482 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1130804001483 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1130804001484 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1130804001485 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 1130804001486 ATP binding site [chemical binding]; other site 1130804001487 putative Mg++ binding site [ion binding]; other site 1130804001488 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 1130804001489 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1130804001490 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1130804001491 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1130804001492 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 1130804001493 dimer interface [polypeptide binding]; other site 1130804001494 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1130804001495 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1130804001496 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1130804001497 nucleotide binding site [chemical binding]; other site 1130804001498 NEF interaction site [polypeptide binding]; other site 1130804001499 SBD interface [polypeptide binding]; other site 1130804001500 chaperone protein DnaJ; Provisional; Region: PRK14276 1130804001501 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 1130804001502 HSP70 interaction site [polypeptide binding]; other site 1130804001503 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1130804001504 substrate binding site [polypeptide binding]; other site 1130804001505 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1130804001506 Zn binding sites [ion binding]; other site 1130804001507 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1130804001508 substrate binding site [polypeptide binding]; other site 1130804001509 dimer interface [polypeptide binding]; other site 1130804001510 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 1130804001511 HIT family signature motif; other site 1130804001512 catalytic residue [active] 1130804001513 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1130804001514 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1130804001515 Walker A/P-loop; other site 1130804001516 ATP binding site [chemical binding]; other site 1130804001517 Q-loop/lid; other site 1130804001518 ABC transporter signature motif; other site 1130804001519 Walker B; other site 1130804001520 D-loop; other site 1130804001521 H-loop/switch region; other site 1130804001522 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 1130804001523 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 1130804001524 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1130804001525 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 1130804001526 active site 1130804001527 phosphorylation site [posttranslational modification] 1130804001528 intermolecular recognition site; other site 1130804001529 dimerization interface [polypeptide binding]; other site 1130804001530 LytTr DNA-binding domain; Region: LytTR; pfam04397 1130804001531 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1130804001532 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 1130804001533 ATP binding site [chemical binding]; other site 1130804001534 Mg2+ binding site [ion binding]; other site 1130804001535 G-X-G motif; other site 1130804001536 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804001537 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 1130804001538 HlyD family secretion protein; Region: HlyD_3; pfam13437 1130804001539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804001540 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1130804001541 Walker A/P-loop; other site 1130804001542 ATP binding site [chemical binding]; other site 1130804001543 Q-loop/lid; other site 1130804001544 ABC transporter signature motif; other site 1130804001545 Walker B; other site 1130804001546 D-loop; other site 1130804001547 H-loop/switch region; other site 1130804001548 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 1130804001549 putative active site [active] 1130804001550 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1130804001551 CAAX protease self-immunity; Region: Abi; pfam02517 1130804001552 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 1130804001553 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 1130804001554 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1130804001555 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1130804001556 CAAX protease self-immunity; Region: Abi; pfam02517 1130804001557 CAAX protease self-immunity; Region: Abi; pfam02517 1130804001558 Phosphotransferase enzyme family; Region: APH; pfam01636 1130804001559 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 1130804001560 substrate binding site [chemical binding]; other site 1130804001561 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 1130804001562 S-adenosylmethionine binding site [chemical binding]; other site 1130804001563 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1130804001564 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1130804001565 putative oligomer interface [polypeptide binding]; other site 1130804001566 putative RNA binding site [nucleotide binding]; other site 1130804001567 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1130804001568 NusA N-terminal domain; Region: NusA_N; pfam08529 1130804001569 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 1130804001570 RNA binding site [nucleotide binding]; other site 1130804001571 homodimer interface [polypeptide binding]; other site 1130804001572 NusA-like KH domain; Region: KH_5; pfam13184 1130804001573 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 1130804001574 G-X-X-G motif; other site 1130804001575 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 1130804001576 putative RNA binding cleft [nucleotide binding]; other site 1130804001577 hypothetical protein; Provisional; Region: PRK07283 1130804001578 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1130804001579 translation initiation factor IF-2; Region: IF-2; TIGR00487 1130804001580 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1130804001581 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1130804001582 G1 box; other site 1130804001583 putative GEF interaction site [polypeptide binding]; other site 1130804001584 GTP/Mg2+ binding site [chemical binding]; other site 1130804001585 Switch I region; other site 1130804001586 G2 box; other site 1130804001587 G3 box; other site 1130804001588 Switch II region; other site 1130804001589 G4 box; other site 1130804001590 G5 box; other site 1130804001591 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 1130804001592 Translation-initiation factor 2; Region: IF-2; pfam11987 1130804001593 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 1130804001594 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1130804001595 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 1130804001596 Uncharacterized conserved protein [Function unknown]; Region: COG2461 1130804001597 Family of unknown function (DUF438); Region: DUF438; pfam04282 1130804001598 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1130804001599 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 1130804001600 putative active site [active] 1130804001601 heme pocket [chemical binding]; other site 1130804001602 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 1130804001603 hypothetical protein; Provisional; Region: PRK07758 1130804001604 Flavin Reductases; Region: FlaRed; cl00801 1130804001605 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1130804001606 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1130804001607 shikimate kinase II; Reviewed; Region: aroL; cl17327 1130804001608 AAA domain; Region: AAA_18; pfam13238 1130804001609 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1130804001610 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1130804001611 active site 1130804001612 HIGH motif; other site 1130804001613 nucleotide binding site [chemical binding]; other site 1130804001614 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1130804001615 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1130804001616 active site 1130804001617 KMSKS motif; other site 1130804001618 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1130804001619 tRNA binding surface [nucleotide binding]; other site 1130804001620 anticodon binding site; other site 1130804001621 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1130804001622 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1130804001623 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 1130804001624 cofactor binding site; other site 1130804001625 AAA domain; Region: AAA_21; pfam13304 1130804001626 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804001627 ABC transporter signature motif; other site 1130804001628 Walker B; other site 1130804001629 D-loop; other site 1130804001630 H-loop/switch region; other site 1130804001631 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1130804001632 Fic/DOC family; Region: Fic; pfam02661 1130804001633 putative transposase OrfB; Reviewed; Region: PHA02517 1130804001634 HTH-like domain; Region: HTH_21; pfam13276 1130804001635 Integrase core domain; Region: rve; pfam00665 1130804001636 Integrase core domain; Region: rve_2; pfam13333 1130804001637 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1130804001638 putative active site [active] 1130804001639 catalytic site [active] 1130804001640 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1130804001641 CAT RNA binding domain; Region: CAT_RBD; smart01061 1130804001642 PRD domain; Region: PRD; pfam00874 1130804001643 PRD domain; Region: PRD; pfam00874 1130804001644 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1130804001645 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 1130804001646 active site turn [active] 1130804001647 phosphorylation site [posttranslational modification] 1130804001648 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1130804001649 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 1130804001650 HPr interaction site; other site 1130804001651 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1130804001652 active site 1130804001653 phosphorylation site [posttranslational modification] 1130804001654 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1130804001655 beta-galactosidase; Region: BGL; TIGR03356 1130804001656 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1130804001657 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1130804001658 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 1130804001659 dimer interface [polypeptide binding]; other site 1130804001660 motif 1; other site 1130804001661 active site 1130804001662 motif 2; other site 1130804001663 motif 3; other site 1130804001664 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1130804001665 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804001666 Coenzyme A binding pocket [chemical binding]; other site 1130804001667 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1130804001668 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 1130804001669 putative tRNA-binding site [nucleotide binding]; other site 1130804001670 B3/4 domain; Region: B3_4; pfam03483 1130804001671 tRNA synthetase B5 domain; Region: B5; smart00874 1130804001672 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 1130804001673 dimer interface [polypeptide binding]; other site 1130804001674 motif 1; other site 1130804001675 motif 3; other site 1130804001676 motif 2; other site 1130804001677 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1130804001678 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1130804001679 putative catalytic site [active] 1130804001680 putative metal binding site [ion binding]; other site 1130804001681 putative phosphate binding site [ion binding]; other site 1130804001682 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1130804001683 Helix-turn-helix domain; Region: HTH_38; pfam13936 1130804001684 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 1130804001685 non-specific DNA binding site [nucleotide binding]; other site 1130804001686 salt bridge; other site 1130804001687 sequence-specific DNA binding site [nucleotide binding]; other site 1130804001688 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1130804001689 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 1130804001690 THF binding site; other site 1130804001691 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 1130804001692 substrate binding site [chemical binding]; other site 1130804001693 THF binding site; other site 1130804001694 zinc-binding site [ion binding]; other site 1130804001695 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 1130804001696 FAD binding site [chemical binding]; other site 1130804001697 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1130804001698 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1130804001699 RNase E interface [polypeptide binding]; other site 1130804001700 trimer interface [polypeptide binding]; other site 1130804001701 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1130804001702 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1130804001703 RNase E interface [polypeptide binding]; other site 1130804001704 trimer interface [polypeptide binding]; other site 1130804001705 active site 1130804001706 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 1130804001707 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 1130804001708 RNA binding site [nucleotide binding]; other site 1130804001709 domain interface; other site 1130804001710 serine O-acetyltransferase; Region: cysE; TIGR01172 1130804001711 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 1130804001712 trimer interface [polypeptide binding]; other site 1130804001713 active site 1130804001714 substrate binding site [chemical binding]; other site 1130804001715 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804001716 Coenzyme A binding pocket [chemical binding]; other site 1130804001717 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1130804001718 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804001719 Coenzyme A binding pocket [chemical binding]; other site 1130804001720 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1130804001721 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1130804001722 active site 1130804001723 HIGH motif; other site 1130804001724 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1130804001725 KMSKS motif; other site 1130804001726 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1130804001727 tRNA binding surface [nucleotide binding]; other site 1130804001728 anticodon binding site; other site 1130804001729 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 1130804001730 active site 1130804001731 metal binding site [ion binding]; metal-binding site 1130804001732 dimerization interface [polypeptide binding]; other site 1130804001733 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1130804001734 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1130804001735 hyperosmolarity resistance protein Ebh, N-terminal domain; Region: hyperosmo_Ebh; TIGR04264 1130804001736 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1130804001737 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1130804001738 FtsX-like permease family; Region: FtsX; pfam02687 1130804001739 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1130804001740 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1130804001741 Walker A/P-loop; other site 1130804001742 ATP binding site [chemical binding]; other site 1130804001743 Q-loop/lid; other site 1130804001744 ABC transporter signature motif; other site 1130804001745 Walker B; other site 1130804001746 D-loop; other site 1130804001747 H-loop/switch region; other site 1130804001748 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1130804001749 FtsX-like permease family; Region: FtsX; pfam02687 1130804001750 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1130804001751 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 1130804001752 active site 1130804001753 phosphorylation site [posttranslational modification] 1130804001754 intermolecular recognition site; other site 1130804001755 dimerization interface [polypeptide binding]; other site 1130804001756 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 1130804001757 DNA binding site [nucleotide binding] 1130804001758 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1130804001759 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 1130804001760 dimerization interface [polypeptide binding]; other site 1130804001761 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 1130804001762 dimer interface [polypeptide binding]; other site 1130804001763 phosphorylation site [posttranslational modification] 1130804001764 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 1130804001765 ATP binding site [chemical binding]; other site 1130804001766 Mg2+ binding site [ion binding]; other site 1130804001767 G-X-G motif; other site 1130804001768 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1130804001769 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 1130804001770 intersubunit interface [polypeptide binding]; other site 1130804001771 active site 1130804001772 zinc binding site [ion binding]; other site 1130804001773 Na+ binding site [ion binding]; other site 1130804001774 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 1130804001775 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1130804001776 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 1130804001777 FAD binding pocket [chemical binding]; other site 1130804001778 FAD binding motif [chemical binding]; other site 1130804001779 phosphate binding motif [ion binding]; other site 1130804001780 beta-alpha-beta structure motif; other site 1130804001781 NAD binding pocket [chemical binding]; other site 1130804001782 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 1130804001783 dimer interface [polypeptide binding]; other site 1130804001784 conserved gate region; other site 1130804001785 putative PBP binding loops; other site 1130804001786 ABC-ATPase subunit interface; other site 1130804001787 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 1130804001788 dimer interface [polypeptide binding]; other site 1130804001789 conserved gate region; other site 1130804001790 putative PBP binding loops; other site 1130804001791 ABC-ATPase subunit interface; other site 1130804001792 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 1130804001793 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 1130804001794 substrate binding pocket [chemical binding]; other site 1130804001795 membrane-bound complex binding site; other site 1130804001796 hinge residues; other site 1130804001797 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1130804001798 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1130804001799 Walker A/P-loop; other site 1130804001800 ATP binding site [chemical binding]; other site 1130804001801 Q-loop/lid; other site 1130804001802 ABC transporter signature motif; other site 1130804001803 Walker B; other site 1130804001804 D-loop; other site 1130804001805 H-loop/switch region; other site 1130804001806 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1130804001807 DHH family; Region: DHH; pfam01368 1130804001808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 1130804001809 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1130804001810 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1130804001811 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1130804001812 Predicted esterase [General function prediction only]; Region: COG0627 1130804001813 S-formylglutathione hydrolase; Region: PLN02442 1130804001814 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 1130804001815 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1130804001816 FemAB family; Region: FemAB; pfam02388 1130804001817 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 1130804001818 active site 1130804001819 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1130804001820 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1130804001821 GIY-YIG motif/motif A; other site 1130804001822 active site 1130804001823 catalytic site [active] 1130804001824 putative DNA binding site [nucleotide binding]; other site 1130804001825 metal binding site [ion binding]; metal-binding site 1130804001826 UvrB/uvrC motif; Region: UVR; pfam02151 1130804001827 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1130804001828 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 1130804001829 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1130804001830 active site 1130804001831 metal binding site [ion binding]; metal-binding site 1130804001832 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1130804001833 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 1130804001834 substrate binding pocket [chemical binding]; other site 1130804001835 membrane-bound complex binding site; other site 1130804001836 hinge residues; other site 1130804001837 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 1130804001838 dimer interface [polypeptide binding]; other site 1130804001839 FMN binding site [chemical binding]; other site 1130804001840 dipeptidase PepV; Reviewed; Region: PRK07318 1130804001841 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1130804001842 active site 1130804001843 metal binding site [ion binding]; metal-binding site 1130804001844 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1130804001845 putative uracil binding site [chemical binding]; other site 1130804001846 putative active site [active] 1130804001847 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 1130804001848 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 1130804001849 active site residue [active] 1130804001850 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1130804001851 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1130804001852 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1130804001853 putative oligomer interface [polypeptide binding]; other site 1130804001854 putative active site [active] 1130804001855 metal binding site [ion binding]; metal-binding site 1130804001856 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1130804001857 nucleotide binding site/active site [active] 1130804001858 HIT family signature motif; other site 1130804001859 catalytic residue [active] 1130804001860 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1130804001861 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1130804001862 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1130804001863 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 1130804001864 23S rRNA interface [nucleotide binding]; other site 1130804001865 L7/L12 interface [polypeptide binding]; other site 1130804001866 putative thiostrepton binding site; other site 1130804001867 L25 interface [polypeptide binding]; other site 1130804001868 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 1130804001869 mRNA/rRNA interface [nucleotide binding]; other site 1130804001870 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 1130804001871 Preprotein binding site; other site 1130804001872 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 1130804001873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804001874 Walker A/P-loop; other site 1130804001875 ATP binding site [chemical binding]; other site 1130804001876 Q-loop/lid; other site 1130804001877 ABC transporter signature motif; other site 1130804001878 Walker B; other site 1130804001879 D-loop; other site 1130804001880 H-loop/switch region; other site 1130804001881 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1130804001882 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1130804001883 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 1130804001884 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1130804001885 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1130804001886 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 1130804001887 putative active site [active] 1130804001888 catalytic triad [active] 1130804001889 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 1130804001890 PA/protease or protease-like domain interface [polypeptide binding]; other site 1130804001891 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1130804001892 catalytic residues [active] 1130804001893 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 1130804001894 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1130804001895 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 1130804001896 active site 1130804001897 phosphorylation site [posttranslational modification] 1130804001898 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 1130804001899 active site 1130804001900 P-loop; other site 1130804001901 phosphorylation site [posttranslational modification] 1130804001902 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1130804001903 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 1130804001904 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 1130804001905 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 1130804001906 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1130804001907 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1130804001908 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1130804001909 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1130804001910 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1130804001911 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1130804001912 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1130804001913 G5 domain; Region: G5; pfam07501 1130804001914 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1130804001915 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1130804001916 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1130804001917 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1130804001918 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1130804001919 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1130804001920 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1130804001921 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1130804001922 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1130804001923 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1130804001924 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1130804001925 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1130804001926 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1130804001927 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 1130804001928 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1130804001929 catalytic residues [active] 1130804001930 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1130804001931 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1130804001932 SelR domain; Region: SelR; pfam01641 1130804001933 Response regulator receiver domain; Region: Response_reg; pfam00072 1130804001934 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 1130804001935 active site 1130804001936 phosphorylation site [posttranslational modification] 1130804001937 intermolecular recognition site; other site 1130804001938 dimerization interface [polypeptide binding]; other site 1130804001939 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1130804001940 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1130804001941 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1130804001942 Cache domain; Region: Cache_1; pfam02743 1130804001943 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 1130804001944 dimerization interface [polypeptide binding]; other site 1130804001945 Histidine kinase; Region: His_kinase; pfam06580 1130804001946 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 1130804001947 ATP binding site [chemical binding]; other site 1130804001948 Mg2+ binding site [ion binding]; other site 1130804001949 G-X-G motif; other site 1130804001950 hypothetical protein; Provisional; Region: PRK13690 1130804001951 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1130804001952 Neuroendocrine-specific golgi protein P55 (NESP55); Region: NESP55; pfam06390 1130804001953 G5 domain; Region: G5; pfam07501 1130804001954 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 1130804001955 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 1130804001956 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1130804001957 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 1130804001958 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 1130804001959 substrate-cofactor binding pocket; other site 1130804001960 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1130804001961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804001962 catalytic residue [active] 1130804001963 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1130804001964 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804001965 Excalibur calcium-binding domain; Region: Excalibur; smart00894 1130804001966 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1130804001967 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1130804001968 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1130804001969 nucleotide binding site [chemical binding]; other site 1130804001970 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1130804001971 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 1130804001972 dimerization interface [polypeptide binding]; other site 1130804001973 active site 1130804001974 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 1130804001975 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1130804001976 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1130804001977 GTPases [General function prediction only]; Region: HflX; COG2262 1130804001978 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1130804001979 HflX GTPase family; Region: HflX; cd01878 1130804001980 G1 box; other site 1130804001981 GTP/Mg2+ binding site [chemical binding]; other site 1130804001982 Switch I region; other site 1130804001983 G2 box; other site 1130804001984 G3 box; other site 1130804001985 Switch II region; other site 1130804001986 G4 box; other site 1130804001987 G5 box; other site 1130804001988 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1130804001989 ribonuclease Z; Region: RNase_Z; TIGR02651 1130804001990 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1130804001991 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1130804001992 NAD(P) binding site [chemical binding]; other site 1130804001993 active site 1130804001994 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1130804001995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1130804001996 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 1130804001997 dimerization interface [polypeptide binding]; other site 1130804001998 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 1130804001999 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 1130804002000 active site residue [active] 1130804002001 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1130804002002 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 1130804002003 RNA binding surface [nucleotide binding]; other site 1130804002004 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1130804002005 active site 1130804002006 uracil binding [chemical binding]; other site 1130804002007 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1130804002008 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1130804002009 G1 box; other site 1130804002010 putative GEF interaction site [polypeptide binding]; other site 1130804002011 GTP/Mg2+ binding site [chemical binding]; other site 1130804002012 Switch I region; other site 1130804002013 G2 box; other site 1130804002014 G3 box; other site 1130804002015 Switch II region; other site 1130804002016 G4 box; other site 1130804002017 G5 box; other site 1130804002018 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 1130804002019 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 1130804002020 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 1130804002021 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; pfam09683 1130804002022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 1130804002023 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 1130804002024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804002025 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1130804002026 Walker A/P-loop; other site 1130804002027 ATP binding site [chemical binding]; other site 1130804002028 Q-loop/lid; other site 1130804002029 ABC transporter signature motif; other site 1130804002030 Walker B; other site 1130804002031 D-loop; other site 1130804002032 H-loop/switch region; other site 1130804002033 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1130804002034 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1130804002035 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1130804002036 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1130804002037 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1130804002038 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 1130804002039 homodimer interface [polypeptide binding]; other site 1130804002040 active site 1130804002041 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1130804002042 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1130804002043 Cell division protein FtsQ; Region: FtsQ; pfam03799 1130804002044 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 1130804002045 active site 1130804002046 dimer interface [polypeptide binding]; other site 1130804002047 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1130804002048 active site 1130804002049 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804002050 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1130804002051 Walker A/P-loop; other site 1130804002052 ATP binding site [chemical binding]; other site 1130804002053 Q-loop/lid; other site 1130804002054 ABC transporter signature motif; other site 1130804002055 Walker B; other site 1130804002056 D-loop; other site 1130804002057 H-loop/switch region; other site 1130804002058 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 1130804002059 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1130804002060 substrate binding pocket [chemical binding]; other site 1130804002061 membrane-bound complex binding site; other site 1130804002062 hinge residues; other site 1130804002063 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1130804002064 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1130804002065 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804002066 Q-loop/lid; other site 1130804002067 ABC transporter signature motif; other site 1130804002068 Walker B; other site 1130804002069 D-loop; other site 1130804002070 H-loop/switch region; other site 1130804002071 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 1130804002072 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804002073 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 1130804002074 dimer interface [polypeptide binding]; other site 1130804002075 conserved gate region; other site 1130804002076 ABC-ATPase subunit interface; other site 1130804002077 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1130804002078 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 1130804002079 dimer interface [polypeptide binding]; other site 1130804002080 conserved gate region; other site 1130804002081 putative PBP binding loops; other site 1130804002082 ABC-ATPase subunit interface; other site 1130804002083 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 1130804002084 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1130804002085 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 1130804002086 dimer interface [polypeptide binding]; other site 1130804002087 putative anticodon binding site; other site 1130804002088 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 1130804002089 motif 1; other site 1130804002090 active site 1130804002091 motif 2; other site 1130804002092 motif 3; other site 1130804002093 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804002094 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 1130804002095 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 1130804002096 teramer interface [polypeptide binding]; other site 1130804002097 active site 1130804002098 FMN binding site [chemical binding]; other site 1130804002099 catalytic residues [active] 1130804002100 Putative transcription activator [Transcription]; Region: TenA; COG0819 1130804002101 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 1130804002102 substrate binding site [chemical binding]; other site 1130804002103 multimerization interface [polypeptide binding]; other site 1130804002104 ATP binding site [chemical binding]; other site 1130804002105 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 1130804002106 thiamine phosphate binding site [chemical binding]; other site 1130804002107 active site 1130804002108 pyrophosphate binding site [ion binding]; other site 1130804002109 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 1130804002110 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1130804002111 Walker A/P-loop; other site 1130804002112 ATP binding site [chemical binding]; other site 1130804002113 ABC transporter; Region: ABC_tran; pfam00005 1130804002114 Q-loop/lid; other site 1130804002115 ABC transporter signature motif; other site 1130804002116 Walker B; other site 1130804002117 D-loop; other site 1130804002118 H-loop/switch region; other site 1130804002119 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804002120 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1130804002121 Walker A/P-loop; other site 1130804002122 ATP binding site [chemical binding]; other site 1130804002123 Q-loop/lid; other site 1130804002124 ABC transporter signature motif; other site 1130804002125 Walker B; other site 1130804002126 D-loop; other site 1130804002127 H-loop/switch region; other site 1130804002128 Putative transcription activator [Transcription]; Region: TenA; COG0819 1130804002129 Predicted membrane protein [Function unknown]; Region: COG4732 1130804002130 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 1130804002131 substrate binding site [chemical binding]; other site 1130804002132 multimerization interface [polypeptide binding]; other site 1130804002133 ATP binding site [chemical binding]; other site 1130804002134 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 1130804002135 active site 1130804002136 thiamine phosphate binding site [chemical binding]; other site 1130804002137 pyrophosphate binding site [ion binding]; other site 1130804002138 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 1130804002139 dimer interface [polypeptide binding]; other site 1130804002140 substrate binding site [chemical binding]; other site 1130804002141 ATP binding site [chemical binding]; other site 1130804002142 Predicted transcriptional regulator [Transcription]; Region: COG3682 1130804002143 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1130804002144 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1130804002145 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1130804002146 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1130804002147 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1130804002148 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1130804002149 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1130804002150 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 1130804002151 PYR/PP interface [polypeptide binding]; other site 1130804002152 dimer interface [polypeptide binding]; other site 1130804002153 tetramer interface [polypeptide binding]; other site 1130804002154 TPP binding site [chemical binding]; other site 1130804002155 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1130804002156 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 1130804002157 TPP-binding site [chemical binding]; other site 1130804002158 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1130804002159 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 1130804002160 active site 1130804002161 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1130804002162 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1130804002163 Winged helix-turn helix; Region: HTH_33; pfam13592 1130804002164 Homeodomain-like domain; Region: HTH_23; pfam13384 1130804002165 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1130804002166 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1130804002167 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1130804002168 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 1130804002169 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1130804002170 Na2 binding site [ion binding]; other site 1130804002171 putative substrate binding site 1 [chemical binding]; other site 1130804002172 Na binding site 1 [ion binding]; other site 1130804002173 putative substrate binding site 2 [chemical binding]; other site 1130804002174 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1130804002175 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1130804002176 dimer interface [polypeptide binding]; other site 1130804002177 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1130804002178 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 1130804002179 putative active site [active] 1130804002180 nucleotide binding site [chemical binding]; other site 1130804002181 nudix motif; other site 1130804002182 putative metal binding site [ion binding]; other site 1130804002183 HI0933-like protein; Region: HI0933_like; pfam03486 1130804002184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 1130804002185 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1130804002186 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1130804002187 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1130804002188 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 1130804002189 catalytic motif [active] 1130804002190 Zn binding site [ion binding]; other site 1130804002191 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1130804002192 active site 1130804002193 Clp protease; Region: CLP_protease; pfam00574 1130804002194 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1130804002195 oligomer interface [polypeptide binding]; other site 1130804002196 active site residues [active] 1130804002197 hypothetical protein; Provisional; Region: PRK02302 1130804002198 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1130804002199 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 1130804002200 putative ligand binding site [chemical binding]; other site 1130804002201 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1130804002202 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 1130804002203 TM-ABC transporter signature motif; other site 1130804002204 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1130804002205 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 1130804002206 TM-ABC transporter signature motif; other site 1130804002207 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1130804002208 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1130804002209 Walker A/P-loop; other site 1130804002210 ATP binding site [chemical binding]; other site 1130804002211 Q-loop/lid; other site 1130804002212 ABC transporter signature motif; other site 1130804002213 Walker B; other site 1130804002214 D-loop; other site 1130804002215 H-loop/switch region; other site 1130804002216 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1130804002217 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1130804002218 Walker A/P-loop; other site 1130804002219 ATP binding site [chemical binding]; other site 1130804002220 Q-loop/lid; other site 1130804002221 ABC transporter signature motif; other site 1130804002222 Walker B; other site 1130804002223 D-loop; other site 1130804002224 H-loop/switch region; other site 1130804002225 FOG: CBS domain [General function prediction only]; Region: COG0517 1130804002226 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 1130804002227 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 1130804002228 peptide chain release factor 2; Region: prfB; TIGR00020 1130804002229 PCRF domain; Region: PCRF; pfam03462 1130804002230 RF-1 domain; Region: RF-1; pfam00472 1130804002231 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1130804002232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804002233 Walker A/P-loop; other site 1130804002234 ATP binding site [chemical binding]; other site 1130804002235 Q-loop/lid; other site 1130804002236 ABC transporter signature motif; other site 1130804002237 Walker B; other site 1130804002238 D-loop; other site 1130804002239 H-loop/switch region; other site 1130804002240 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1130804002241 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1130804002242 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1130804002243 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 1130804002244 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 1130804002245 active site turn [active] 1130804002246 phosphorylation site [posttranslational modification] 1130804002247 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1130804002248 HPr interaction site; other site 1130804002249 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1130804002250 active site 1130804002251 phosphorylation site [posttranslational modification] 1130804002252 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 1130804002253 putative catalytic site [active] 1130804002254 putative metal binding site [ion binding]; other site 1130804002255 putative phosphate binding site [ion binding]; other site 1130804002256 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 1130804002257 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1130804002258 ATP binding site [chemical binding]; other site 1130804002259 Mg++ binding site [ion binding]; other site 1130804002260 motif III; other site 1130804002261 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 1130804002262 nucleotide binding region [chemical binding]; other site 1130804002263 ATP-binding site [chemical binding]; other site 1130804002264 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1130804002265 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1130804002266 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1130804002267 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1130804002268 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1130804002269 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 1130804002270 active site 1130804002271 FMN binding site [chemical binding]; other site 1130804002272 substrate binding site [chemical binding]; other site 1130804002273 catalytic residues [active] 1130804002274 homodimer interface [polypeptide binding]; other site 1130804002275 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1130804002276 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1130804002277 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1130804002278 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1130804002279 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1130804002280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 1130804002281 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 1130804002282 VanZ like family; Region: VanZ; pfam04892 1130804002283 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1130804002284 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804002285 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804002286 ABC transporter; Region: ABC_tran_2; pfam12848 1130804002287 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804002288 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 1130804002289 active site 1130804002290 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 1130804002291 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 1130804002292 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1130804002293 KH domain; Region: KH_4; pfam13083 1130804002294 G-X-X-G motif; other site 1130804002295 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804002296 Homeodomain-like domain; Region: HTH_23; pfam13384 1130804002297 Winged helix-turn helix; Region: HTH_29; pfam13551 1130804002298 Winged helix-turn helix; Region: HTH_33; pfam13592 1130804002299 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1130804002300 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1130804002301 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 1130804002302 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1130804002303 ATP binding site [chemical binding]; other site 1130804002304 putative Mg++ binding site [ion binding]; other site 1130804002305 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 1130804002306 nucleotide binding region [chemical binding]; other site 1130804002307 ATP-binding site [chemical binding]; other site 1130804002308 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1130804002309 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1130804002310 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1130804002311 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1130804002312 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 1130804002313 NodB motif; other site 1130804002314 active site 1130804002315 catalytic site [active] 1130804002316 Zn binding site [ion binding]; other site 1130804002317 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 1130804002318 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1130804002319 active site 1130804002320 catalytic tetrad [active] 1130804002321 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1130804002322 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 1130804002323 dimer interface [polypeptide binding]; other site 1130804002324 motif 1; other site 1130804002325 active site 1130804002326 motif 2; other site 1130804002327 motif 3; other site 1130804002328 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1130804002329 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 1130804002330 DALR anticodon binding domain; Region: DALR_1; pfam05746 1130804002331 hypothetical protein; Provisional; Region: PRK02539 1130804002332 Predicted flavoprotein [General function prediction only]; Region: COG0431 1130804002333 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1130804002334 PAS domain; Region: PAS_10; pfam13596 1130804002335 Predicted flavoprotein [General function prediction only]; Region: COG0431 1130804002336 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1130804002337 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1130804002338 ApbE family; Region: ApbE; pfam02424 1130804002339 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1130804002340 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1130804002341 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1130804002342 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1130804002343 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 1130804002344 active site 1130804002345 multimer interface [polypeptide binding]; other site 1130804002346 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1130804002347 predicted active site [active] 1130804002348 catalytic triad [active] 1130804002349 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1130804002350 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1130804002351 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1130804002352 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1130804002353 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1130804002354 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1130804002355 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 1130804002356 DNA binding site [nucleotide binding] 1130804002357 active site 1130804002358 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 1130804002359 putative ArsC-like catalytic residues; other site 1130804002360 putative TRX-like catalytic residues [active] 1130804002361 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 1130804002362 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 1130804002363 ABC-ATPase subunit interface; other site 1130804002364 putative PBP binding loops; other site 1130804002365 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1130804002366 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1130804002367 Walker A/P-loop; other site 1130804002368 ATP binding site [chemical binding]; other site 1130804002369 Q-loop/lid; other site 1130804002370 ABC transporter signature motif; other site 1130804002371 Walker B; other site 1130804002372 D-loop; other site 1130804002373 H-loop/switch region; other site 1130804002374 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 1130804002375 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1130804002376 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1130804002377 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1130804002378 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1130804002379 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1130804002380 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1130804002381 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 1130804002382 active site 1130804002383 catalytic residues [active] 1130804002384 metal binding site [ion binding]; metal-binding site 1130804002385 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1130804002386 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1130804002387 putative active site [active] 1130804002388 putative metal binding site [ion binding]; other site 1130804002389 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1130804002390 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 1130804002391 active site 1130804002392 motif I; other site 1130804002393 motif II; other site 1130804002394 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 1130804002395 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 1130804002396 active site 1130804002397 catalytic triad [active] 1130804002398 oxyanion hole [active] 1130804002399 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1130804002400 Beta-lactamase; Region: Beta-lactamase; pfam00144 1130804002401 EamA-like transporter family; Region: EamA; pfam00892 1130804002402 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1130804002403 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1130804002404 DNA-binding site [nucleotide binding]; DNA binding site 1130804002405 UTRA domain; Region: UTRA; pfam07702 1130804002406 GMP synthase; Reviewed; Region: guaA; PRK00074 1130804002407 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1130804002408 AMP/PPi binding site [chemical binding]; other site 1130804002409 candidate oxyanion hole; other site 1130804002410 catalytic triad [active] 1130804002411 potential glutamine specificity residues [chemical binding]; other site 1130804002412 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 1130804002413 ATP Binding subdomain [chemical binding]; other site 1130804002414 Dimerization subdomain; other site 1130804002415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804002416 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804002417 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1130804002418 Helix-turn-helix domain; Region: HTH_18; pfam12833 1130804002419 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1130804002420 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1130804002421 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1130804002422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804002423 Walker A/P-loop; other site 1130804002424 ATP binding site [chemical binding]; other site 1130804002425 Q-loop/lid; other site 1130804002426 ABC transporter signature motif; other site 1130804002427 Walker B; other site 1130804002428 D-loop; other site 1130804002429 H-loop/switch region; other site 1130804002430 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1130804002431 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804002432 Walker A/P-loop; other site 1130804002433 ATP binding site [chemical binding]; other site 1130804002434 Q-loop/lid; other site 1130804002435 ABC transporter signature motif; other site 1130804002436 Walker B; other site 1130804002437 D-loop; other site 1130804002438 H-loop/switch region; other site 1130804002439 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 1130804002440 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1130804002441 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1130804002442 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1130804002443 Walker A/P-loop; other site 1130804002444 ATP binding site [chemical binding]; other site 1130804002445 Q-loop/lid; other site 1130804002446 ABC transporter signature motif; other site 1130804002447 Walker B; other site 1130804002448 D-loop; other site 1130804002449 H-loop/switch region; other site 1130804002450 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804002451 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1130804002452 Walker A/P-loop; other site 1130804002453 ATP binding site [chemical binding]; other site 1130804002454 Q-loop/lid; other site 1130804002455 ABC transporter signature motif; other site 1130804002456 Walker B; other site 1130804002457 D-loop; other site 1130804002458 H-loop/switch region; other site 1130804002459 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1130804002460 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1130804002461 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1130804002462 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1130804002463 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 1130804002464 S-adenosylmethionine binding site [chemical binding]; other site 1130804002465 ApaLI-like restriction endonuclease; Region: RE_ApaLI; pfam09499 1130804002466 ApaLI-like restriction endonuclease; Region: RE_ApaLI; pfam09499 1130804002467 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1130804002468 Peptidase family U32; Region: Peptidase_U32; pfam01136 1130804002469 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1130804002470 Peptidase family U32; Region: Peptidase_U32; pfam01136 1130804002471 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 1130804002472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804002473 ABC transporter; Region: ABC_tran; pfam00005 1130804002474 Q-loop/lid; other site 1130804002475 ABC transporter signature motif; other site 1130804002476 Walker B; other site 1130804002477 D-loop; other site 1130804002478 H-loop/switch region; other site 1130804002479 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 1130804002480 non-specific DNA binding site [nucleotide binding]; other site 1130804002481 salt bridge; other site 1130804002482 sequence-specific DNA binding site [nucleotide binding]; other site 1130804002483 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1130804002484 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 1130804002485 active site 1130804002486 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1130804002487 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 1130804002488 homodimer interface [polypeptide binding]; other site 1130804002489 NAD binding pocket [chemical binding]; other site 1130804002490 ATP binding pocket [chemical binding]; other site 1130804002491 Mg binding site [ion binding]; other site 1130804002492 active-site loop [active] 1130804002493 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1130804002494 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1130804002495 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804002496 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1130804002497 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804002498 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804002499 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1130804002500 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1130804002501 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1130804002502 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 1130804002503 active site 1130804002504 trimer interface [polypeptide binding]; other site 1130804002505 allosteric site; other site 1130804002506 active site lid [active] 1130804002507 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1130804002508 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1130804002509 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1130804002510 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1130804002511 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 1130804002512 Hpr binding site; other site 1130804002513 active site 1130804002514 homohexamer subunit interaction site [polypeptide binding]; other site 1130804002515 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1130804002516 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 1130804002517 YtxH-like protein; Region: YtxH; pfam12732 1130804002518 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1130804002519 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 1130804002520 FeS/SAM binding site; other site 1130804002521 HemN C-terminal domain; Region: HemN_C; pfam06969 1130804002522 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 1130804002523 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 1130804002524 active site 1130804002525 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 1130804002526 active site 1130804002527 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1130804002528 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 1130804002529 active site 1130804002530 motif I; other site 1130804002531 motif II; other site 1130804002532 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 1130804002533 Predicted membrane protein [Function unknown]; Region: COG4478 1130804002534 ArsC family; Region: ArsC; pfam03960 1130804002535 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 1130804002536 putative catalytic residues [active] 1130804002537 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 1130804002538 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1130804002539 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 1130804002540 active site 1130804002541 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1130804002542 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 1130804002543 S-adenosylmethionine binding site [chemical binding]; other site 1130804002544 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1130804002545 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1130804002546 phosphate binding protein; Region: ptsS_2; TIGR02136 1130804002547 sulfate transport protein; Provisional; Region: cysT; CHL00187 1130804002548 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 1130804002549 dimer interface [polypeptide binding]; other site 1130804002550 conserved gate region; other site 1130804002551 putative PBP binding loops; other site 1130804002552 ABC-ATPase subunit interface; other site 1130804002553 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1130804002554 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 1130804002555 dimer interface [polypeptide binding]; other site 1130804002556 conserved gate region; other site 1130804002557 putative PBP binding loops; other site 1130804002558 ABC-ATPase subunit interface; other site 1130804002559 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 1130804002560 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1130804002561 Walker A/P-loop; other site 1130804002562 ATP binding site [chemical binding]; other site 1130804002563 Q-loop/lid; other site 1130804002564 ABC transporter signature motif; other site 1130804002565 Walker B; other site 1130804002566 D-loop; other site 1130804002567 H-loop/switch region; other site 1130804002568 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 1130804002569 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1130804002570 Walker A/P-loop; other site 1130804002571 ATP binding site [chemical binding]; other site 1130804002572 Q-loop/lid; other site 1130804002573 ABC transporter signature motif; other site 1130804002574 Walker B; other site 1130804002575 D-loop; other site 1130804002576 H-loop/switch region; other site 1130804002577 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1130804002578 PhoU domain; Region: PhoU; pfam01895 1130804002579 PhoU domain; Region: PhoU; pfam01895 1130804002580 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 1130804002581 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1130804002582 substrate binding pocket [chemical binding]; other site 1130804002583 membrane-bound complex binding site; other site 1130804002584 hinge residues; other site 1130804002585 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 1130804002586 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1130804002587 DNA-binding site [nucleotide binding]; DNA binding site 1130804002588 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 1130804002589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804002590 homodimer interface [polypeptide binding]; other site 1130804002591 catalytic residue [active] 1130804002592 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 1130804002593 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 1130804002594 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1130804002595 FAD binding domain; Region: FAD_binding_4; pfam01565 1130804002596 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1130804002597 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1130804002598 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1130804002599 Walker A/P-loop; other site 1130804002600 ATP binding site [chemical binding]; other site 1130804002601 Q-loop/lid; other site 1130804002602 ABC transporter signature motif; other site 1130804002603 Walker B; other site 1130804002604 D-loop; other site 1130804002605 H-loop/switch region; other site 1130804002606 TOBE domain; Region: TOBE_2; pfam08402 1130804002607 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 1130804002608 dimer interface [polypeptide binding]; other site 1130804002609 conserved gate region; other site 1130804002610 putative PBP binding loops; other site 1130804002611 ABC-ATPase subunit interface; other site 1130804002612 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1130804002613 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 1130804002614 dimer interface [polypeptide binding]; other site 1130804002615 conserved gate region; other site 1130804002616 putative PBP binding loops; other site 1130804002617 ABC-ATPase subunit interface; other site 1130804002618 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1130804002619 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1130804002620 Uncharacterized conserved protein [Function unknown]; Region: COG4894 1130804002621 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1130804002622 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 1130804002623 motif 1; other site 1130804002624 active site 1130804002625 motif 2; other site 1130804002626 motif 3; other site 1130804002627 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1130804002628 DHHA1 domain; Region: DHHA1; pfam02272 1130804002629 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 1130804002630 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 1130804002631 active site 1130804002632 Na/Ca binding site [ion binding]; other site 1130804002633 catalytic site [active] 1130804002634 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 1130804002635 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1130804002636 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1130804002637 Walker A/P-loop; other site 1130804002638 ATP binding site [chemical binding]; other site 1130804002639 Q-loop/lid; other site 1130804002640 ABC transporter signature motif; other site 1130804002641 Walker B; other site 1130804002642 D-loop; other site 1130804002643 H-loop/switch region; other site 1130804002644 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1130804002645 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1130804002646 putative RNA binding site [nucleotide binding]; other site 1130804002647 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 1130804002648 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1130804002649 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1130804002650 active site 1130804002651 catalytic residue [active] 1130804002652 dimer interface [polypeptide binding]; other site 1130804002653 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1130804002654 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1130804002655 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1130804002656 shikimate binding site; other site 1130804002657 NAD(P) binding site [chemical binding]; other site 1130804002658 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1130804002659 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1130804002660 active site 1130804002661 dimer interface [polypeptide binding]; other site 1130804002662 metal binding site [ion binding]; metal-binding site 1130804002663 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1130804002664 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1130804002665 Tetramer interface [polypeptide binding]; other site 1130804002666 active site 1130804002667 FMN-binding site [chemical binding]; other site 1130804002668 prephenate dehydrogenase; Validated; Region: PRK06545 1130804002669 prephenate dehydrogenase; Validated; Region: PRK08507 1130804002670 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 1130804002671 hypothetical protein; Provisional; Region: PRK13676 1130804002672 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1130804002673 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 1130804002674 hinge; other site 1130804002675 active site 1130804002676 Shikimate kinase; Region: SKI; pfam01202 1130804002677 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 1130804002678 ADP binding site [chemical binding]; other site 1130804002679 magnesium binding site [ion binding]; other site 1130804002680 putative shikimate binding site; other site 1130804002681 prephenate dehydratase; Provisional; Region: PRK11898 1130804002682 Prephenate dehydratase; Region: PDT; pfam00800 1130804002683 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 1130804002684 putative L-Phe binding site [chemical binding]; other site 1130804002685 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1130804002686 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1130804002687 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1130804002688 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 1130804002689 putative ADP-binding pocket [chemical binding]; other site 1130804002690 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1130804002691 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 1130804002692 active site 1130804002693 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 1130804002694 adaptor protein; Provisional; Region: PRK02315 1130804002695 homoserine dehydrogenase; Provisional; Region: PRK06349 1130804002696 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1130804002697 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1130804002698 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 1130804002699 homoserine kinase; Provisional; Region: PRK01212 1130804002700 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1130804002701 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1130804002702 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1130804002703 SelR domain; Region: SelR; pfam01641 1130804002704 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1130804002705 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1130804002706 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804002707 Walker A/P-loop; other site 1130804002708 ATP binding site [chemical binding]; other site 1130804002709 Q-loop/lid; other site 1130804002710 ABC transporter signature motif; other site 1130804002711 Walker B; other site 1130804002712 D-loop; other site 1130804002713 H-loop/switch region; other site 1130804002714 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1130804002715 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1130804002716 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1130804002717 Walker A/P-loop; other site 1130804002718 ATP binding site [chemical binding]; other site 1130804002719 Q-loop/lid; other site 1130804002720 ABC transporter signature motif; other site 1130804002721 Walker B; other site 1130804002722 D-loop; other site 1130804002723 H-loop/switch region; other site 1130804002724 chlorohydrolase; Validated; Region: PRK06687 1130804002725 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 1130804002726 active site 1130804002727 putative substrate binding pocket [chemical binding]; other site 1130804002728 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 1130804002729 23S rRNA interface [nucleotide binding]; other site 1130804002730 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1130804002731 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 1130804002732 core dimer interface [polypeptide binding]; other site 1130804002733 L10 interface [polypeptide binding]; other site 1130804002734 L11 interface [polypeptide binding]; other site 1130804002735 putative EF-Tu interaction site [polypeptide binding]; other site 1130804002736 putative EF-G interaction site [polypeptide binding]; other site 1130804002737 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 1130804002738 Walker A motif; other site 1130804002739 ATP binding site [chemical binding]; other site 1130804002740 Walker B motif; other site 1130804002741 glutamate dehydrogenase; Provisional; Region: PRK09414 1130804002742 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1130804002743 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1130804002744 NAD(P) binding site [chemical binding]; other site 1130804002745 Winged helix-turn helix; Region: HTH_33; pfam13592 1130804002746 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1130804002747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1130804002748 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1130804002749 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1130804002750 DHH family; Region: DHH; pfam01368 1130804002751 flavodoxin; Validated; Region: PRK07308 1130804002752 hypothetical protein; Provisional; Region: PRK07248 1130804002753 camphor resistance protein CrcB; Provisional; Region: PRK14221 1130804002754 camphor resistance protein CrcB; Provisional; Region: PRK14229 1130804002755 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1130804002756 SAP domain; Region: SAP; pfam02037 1130804002757 sugar phosphate phosphatase; Provisional; Region: PRK10513 1130804002758 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 1130804002759 active site 1130804002760 motif I; other site 1130804002761 motif II; other site 1130804002762 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 1130804002763 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1130804002764 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1130804002765 Zn2+ binding site [ion binding]; other site 1130804002766 Mg2+ binding site [ion binding]; other site 1130804002767 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1130804002768 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1130804002769 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 1130804002770 signal recognition particle protein; Provisional; Region: PRK10867 1130804002771 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1130804002772 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 1130804002773 P loop; other site 1130804002774 GTP binding site [chemical binding]; other site 1130804002775 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1130804002776 uracil transporter; Provisional; Region: PRK10720 1130804002777 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1130804002778 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 1130804002779 S-adenosylmethionine binding site [chemical binding]; other site 1130804002780 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1130804002781 heat shock protein HtpX; Provisional; Region: PRK04897 1130804002782 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1130804002783 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804002784 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804002785 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1130804002786 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1130804002787 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1130804002788 minor groove reading motif; other site 1130804002789 helix-hairpin-helix signature motif; other site 1130804002790 substrate binding pocket [chemical binding]; other site 1130804002791 active site 1130804002792 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1130804002793 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1130804002794 active site 1130804002795 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1130804002796 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1130804002797 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1130804002798 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1130804002799 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1130804002800 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1130804002801 catalytic site [active] 1130804002802 subunit interface [polypeptide binding]; other site 1130804002803 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1130804002804 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1130804002805 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1130804002806 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1130804002807 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1130804002808 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1130804002809 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 1130804002810 IMP binding site; other site 1130804002811 dimer interface [polypeptide binding]; other site 1130804002812 interdomain contacts; other site 1130804002813 partial ornithine binding site; other site 1130804002814 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1130804002815 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1130804002816 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1130804002817 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1130804002818 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1130804002819 substrate binding site; other site 1130804002820 dimer interface; other site 1130804002821 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 1130804002822 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1130804002823 putative NAD(P) binding site [chemical binding]; other site 1130804002824 putative catalytic Zn binding site [ion binding]; other site 1130804002825 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 1130804002826 Phosphotransferase enzyme family; Region: APH; pfam01636 1130804002827 active site 1130804002828 substrate binding site [chemical binding]; other site 1130804002829 ATP binding site [chemical binding]; other site 1130804002830 dimer interface [polypeptide binding]; other site 1130804002831 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 1130804002832 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1130804002833 active site 1130804002834 metal-binding site 1130804002835 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1130804002836 DNA protecting protein DprA; Region: dprA; TIGR00732 1130804002837 Predicted membrane protein [Function unknown]; Region: COG1808 1130804002838 DNA topoisomerase I; Validated; Region: PRK05582 1130804002839 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 1130804002840 active site 1130804002841 interdomain interaction site; other site 1130804002842 putative metal-binding site [ion binding]; other site 1130804002843 nucleotide binding site [chemical binding]; other site 1130804002844 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 1130804002845 domain I; other site 1130804002846 DNA binding groove [nucleotide binding] 1130804002847 phosphate binding site [ion binding]; other site 1130804002848 domain II; other site 1130804002849 domain III; other site 1130804002850 nucleotide binding site [chemical binding]; other site 1130804002851 catalytic site [active] 1130804002852 domain IV; other site 1130804002853 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1130804002854 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1130804002855 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 1130804002856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1130804002857 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1130804002858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1130804002859 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1130804002860 tartrate dehydrogenase; Region: TTC; TIGR02089 1130804002861 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 1130804002862 substrate binding site [chemical binding]; other site 1130804002863 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1130804002864 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1130804002865 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 1130804002866 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 1130804002867 Walker A motif; other site 1130804002868 ATP binding site [chemical binding]; other site 1130804002869 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 1130804002870 McrBC 5-methylcytosine restriction system component [Defense mechanisms]; Region: McrC; COG4268 1130804002871 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1130804002872 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 1130804002873 active site 1130804002874 ribonuclease III; Reviewed; Region: rnc; PRK00102 1130804002875 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 1130804002876 dimerization interface [polypeptide binding]; other site 1130804002877 active site 1130804002878 metal binding site [ion binding]; metal-binding site 1130804002879 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 1130804002880 dsRNA binding site [nucleotide binding]; other site 1130804002881 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1130804002882 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1130804002883 Walker A/P-loop; other site 1130804002884 ATP binding site [chemical binding]; other site 1130804002885 Q-loop/lid; other site 1130804002886 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1130804002887 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1130804002888 ABC transporter signature motif; other site 1130804002889 Walker B; other site 1130804002890 D-loop; other site 1130804002891 H-loop/switch region; other site 1130804002892 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1130804002893 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 1130804002894 active site 1130804002895 motif I; other site 1130804002896 motif II; other site 1130804002897 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1130804002898 sugar phosphate phosphatase; Provisional; Region: PRK10513 1130804002899 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 1130804002900 motif II; other site 1130804002901 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1130804002902 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1130804002903 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1130804002904 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 1130804002905 P loop; other site 1130804002906 GTP binding site [chemical binding]; other site 1130804002907 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1130804002908 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1130804002909 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1130804002910 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1130804002911 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1130804002912 Walker A/P-loop; other site 1130804002913 ATP binding site [chemical binding]; other site 1130804002914 Q-loop/lid; other site 1130804002915 ABC transporter signature motif; other site 1130804002916 Walker B; other site 1130804002917 D-loop; other site 1130804002918 H-loop/switch region; other site 1130804002919 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 1130804002920 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1130804002921 substrate binding pocket [chemical binding]; other site 1130804002922 membrane-bound complex binding site; other site 1130804002923 hinge residues; other site 1130804002924 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 1130804002925 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1130804002926 substrate binding pocket [chemical binding]; other site 1130804002927 membrane-bound complex binding site; other site 1130804002928 hinge residues; other site 1130804002929 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 1130804002930 dimer interface [polypeptide binding]; other site 1130804002931 conserved gate region; other site 1130804002932 putative PBP binding loops; other site 1130804002933 ABC-ATPase subunit interface; other site 1130804002934 CAAX protease self-immunity; Region: Abi; pfam02517 1130804002935 excinuclease ABC subunit B; Provisional; Region: PRK05298 1130804002936 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 1130804002937 ATP binding site [chemical binding]; other site 1130804002938 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 1130804002939 nucleotide binding region [chemical binding]; other site 1130804002940 ATP-binding site [chemical binding]; other site 1130804002941 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1130804002942 UvrB/uvrC motif; Region: UVR; pfam02151 1130804002943 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1130804002944 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804002945 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1130804002946 Coenzyme A binding pocket [chemical binding]; other site 1130804002947 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 1130804002948 putative active site [active] 1130804002949 nucleotide binding site [chemical binding]; other site 1130804002950 nudix motif; other site 1130804002951 putative metal binding site [ion binding]; other site 1130804002952 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1130804002953 HTH domain; Region: HTH_11; pfam08279 1130804002954 3H domain; Region: 3H; pfam02829 1130804002955 Predicted membrane protein [Function unknown]; Region: COG4684 1130804002956 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 1130804002957 Flavoprotein; Region: Flavoprotein; pfam02441 1130804002958 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 1130804002959 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1130804002960 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 1130804002961 Potassium binding sites [ion binding]; other site 1130804002962 Cesium cation binding sites [ion binding]; other site 1130804002963 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1130804002964 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1130804002965 minor groove reading motif; other site 1130804002966 helix-hairpin-helix signature motif; other site 1130804002967 substrate binding pocket [chemical binding]; other site 1130804002968 active site 1130804002969 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 1130804002970 DNA binding and oxoG recognition site [nucleotide binding] 1130804002971 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1130804002972 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 1130804002973 active site 1130804002974 phosphorylation site [posttranslational modification] 1130804002975 intermolecular recognition site; other site 1130804002976 dimerization interface [polypeptide binding]; other site 1130804002977 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 1130804002978 DNA binding site [nucleotide binding] 1130804002979 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1130804002980 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 1130804002981 putative active site [active] 1130804002982 heme pocket [chemical binding]; other site 1130804002983 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 1130804002984 dimer interface [polypeptide binding]; other site 1130804002985 phosphorylation site [posttranslational modification] 1130804002986 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 1130804002987 ATP binding site [chemical binding]; other site 1130804002988 Mg2+ binding site [ion binding]; other site 1130804002989 G-X-G motif; other site 1130804002990 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1130804002991 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1130804002992 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1130804002993 Ion channel; Region: Ion_trans_2; pfam07885 1130804002994 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804002995 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1130804002996 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1130804002997 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1130804002998 NAD binding site [chemical binding]; other site 1130804002999 dimer interface [polypeptide binding]; other site 1130804003000 substrate binding site [chemical binding]; other site 1130804003001 DNA gyrase subunit A; Validated; Region: PRK05560 1130804003002 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 1130804003003 CAP-like domain; other site 1130804003004 active site 1130804003005 primary dimer interface [polypeptide binding]; other site 1130804003006 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1130804003007 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1130804003008 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1130804003009 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1130804003010 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1130804003011 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1130804003012 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 1130804003013 active site 1130804003014 catalytic site [active] 1130804003015 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1130804003016 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1130804003017 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 1130804003018 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1130804003019 catalytic residue [active] 1130804003020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 1130804003021 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 1130804003022 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 1130804003023 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1130804003024 RNA binding site [nucleotide binding]; other site 1130804003025 active site 1130804003026 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 1130804003027 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1130804003028 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 1130804003029 Sugar specificity; other site 1130804003030 Pyrimidine base specificity; other site 1130804003031 ATP-binding site [chemical binding]; other site 1130804003032 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1130804003033 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 1130804003034 generic binding surface II; other site 1130804003035 generic binding surface I; other site 1130804003036 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1130804003037 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1130804003038 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1130804003039 substrate binding pocket [chemical binding]; other site 1130804003040 chain length determination region; other site 1130804003041 substrate-Mg2+ binding site; other site 1130804003042 catalytic residues [active] 1130804003043 aspartate-rich region 1; other site 1130804003044 active site lid residues [active] 1130804003045 aspartate-rich region 2; other site 1130804003046 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1130804003047 S4 RNA-binding domain; Region: S4; smart00363 1130804003048 RNA binding surface [nucleotide binding]; other site 1130804003049 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1130804003050 Arginine repressor [Transcription]; Region: ArgR; COG1438 1130804003051 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1130804003052 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1130804003053 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1130804003054 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1130804003055 Walker A/P-loop; other site 1130804003056 ATP binding site [chemical binding]; other site 1130804003057 Q-loop/lid; other site 1130804003058 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1130804003059 ABC transporter signature motif; other site 1130804003060 Walker B; other site 1130804003061 D-loop; other site 1130804003062 H-loop/switch region; other site 1130804003063 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 1130804003064 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1130804003065 active site 1130804003066 metal binding site [ion binding]; metal-binding site 1130804003067 GTP-binding protein LepA; Provisional; Region: PRK05433 1130804003068 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1130804003069 G1 box; other site 1130804003070 putative GEF interaction site [polypeptide binding]; other site 1130804003071 GTP/Mg2+ binding site [chemical binding]; other site 1130804003072 Switch I region; other site 1130804003073 G2 box; other site 1130804003074 G3 box; other site 1130804003075 Switch II region; other site 1130804003076 G4 box; other site 1130804003077 G5 box; other site 1130804003078 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 1130804003079 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 1130804003080 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1130804003081 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 1130804003082 active site 1130804003083 phosphorylation site [posttranslational modification] 1130804003084 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 1130804003085 active site 1130804003086 P-loop; other site 1130804003087 phosphorylation site [posttranslational modification] 1130804003088 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 1130804003089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1130804003090 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1130804003091 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1130804003092 active site 1130804003093 catalytic residues [active] 1130804003094 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 1130804003095 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 1130804003096 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 1130804003097 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 1130804003098 putative substrate binding site [chemical binding]; other site 1130804003099 putative ATP binding site [chemical binding]; other site 1130804003100 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 1130804003101 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1130804003102 CAT RNA binding domain; Region: CAT_RBD; smart01061 1130804003103 PRD domain; Region: PRD; pfam00874 1130804003104 PRD domain; Region: PRD; pfam00874 1130804003105 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 1130804003106 methionine cluster; other site 1130804003107 active site 1130804003108 phosphorylation site [posttranslational modification] 1130804003109 metal binding site [ion binding]; metal-binding site 1130804003110 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 1130804003111 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1130804003112 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 1130804003113 active site 1130804003114 P-loop; other site 1130804003115 phosphorylation site [posttranslational modification] 1130804003116 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 1130804003117 beta-galactosidase; Region: BGL; TIGR03356 1130804003118 Protein of unknown function (DUF3884); Region: DUF3884; pfam13024 1130804003119 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1130804003120 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1130804003121 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1130804003122 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1130804003123 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1130804003124 dimer interface [polypeptide binding]; other site 1130804003125 putative radical transfer pathway; other site 1130804003126 diiron center [ion binding]; other site 1130804003127 tyrosyl radical; other site 1130804003128 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1130804003129 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1130804003130 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1130804003131 active site 1130804003132 dimer interface [polypeptide binding]; other site 1130804003133 catalytic residues [active] 1130804003134 effector binding site; other site 1130804003135 R2 peptide binding site; other site 1130804003136 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 1130804003137 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 1130804003138 dimerization domain swap beta strand [polypeptide binding]; other site 1130804003139 regulatory protein interface [polypeptide binding]; other site 1130804003140 active site 1130804003141 regulatory phosphorylation site [posttranslational modification]; other site 1130804003142 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1130804003143 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1130804003144 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1130804003145 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1130804003146 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 1130804003147 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003148 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003149 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003150 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 1130804003151 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003152 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003153 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003154 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003155 potential frameshift: common BLAST hit: gi|182684850|ref|YP_001836597.1| IS1167, transposase 1130804003156 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804003157 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804003158 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1130804003159 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804003160 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003161 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003162 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003163 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1130804003164 peptidase T; Region: peptidase-T; TIGR01882 1130804003165 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1130804003166 metal binding site [ion binding]; metal-binding site 1130804003167 dimer interface [polypeptide binding]; other site 1130804003168 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1130804003169 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 1130804003170 Catalytic site [active] 1130804003171 T surface-antigen of pili; Region: FctA; cl16948 1130804003172 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 1130804003173 active site 1130804003174 catalytic site [active] 1130804003175 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 1130804003176 active site 1130804003177 catalytic site [active] 1130804003178 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 1130804003179 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 1130804003180 active site 1130804003181 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 1130804003182 active site 1130804003183 N-terminal domain interface [polypeptide binding]; other site 1130804003184 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1130804003185 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1130804003186 Predicted membrane protein [Function unknown]; Region: COG2246 1130804003187 GtrA-like protein; Region: GtrA; pfam04138 1130804003188 Predicted membrane protein [Function unknown]; Region: COG4708 1130804003189 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1130804003190 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1130804003191 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1130804003192 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1130804003193 dimer interface [polypeptide binding]; other site 1130804003194 active site 1130804003195 catalytic residue [active] 1130804003196 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1130804003197 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1130804003198 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1130804003199 G1 box; other site 1130804003200 GTP/Mg2+ binding site [chemical binding]; other site 1130804003201 Switch I region; other site 1130804003202 G2 box; other site 1130804003203 Switch II region; other site 1130804003204 G3 box; other site 1130804003205 G4 box; other site 1130804003206 G5 box; other site 1130804003207 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1130804003208 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 1130804003209 active site 1 [active] 1130804003210 dimer interface [polypeptide binding]; other site 1130804003211 hexamer interface [polypeptide binding]; other site 1130804003212 active site 2 [active] 1130804003213 thymidine kinase; Provisional; Region: PRK04296 1130804003214 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1130804003215 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1130804003216 RF-1 domain; Region: RF-1; pfam00472 1130804003217 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1130804003218 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 1130804003219 S-adenosylmethionine binding site [chemical binding]; other site 1130804003220 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1130804003221 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1130804003222 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804003223 Coenzyme A binding pocket [chemical binding]; other site 1130804003224 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1130804003225 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 1130804003226 dimer interface [polypeptide binding]; other site 1130804003227 active site 1130804003228 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1130804003229 folate binding site [chemical binding]; other site 1130804003230 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 1130804003231 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1130804003232 Lysozyme-like; Region: Lysozyme_like; pfam13702 1130804003233 Predicted secreted protein [Function unknown]; Region: COG4086 1130804003234 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1130804003235 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1130804003236 TRAM domain; Region: TRAM; cl01282 1130804003237 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 1130804003238 S-adenosylmethionine binding site [chemical binding]; other site 1130804003239 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 1130804003240 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1130804003241 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 1130804003242 siderophore binding site; other site 1130804003243 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1130804003244 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 1130804003245 ABC-ATPase subunit interface; other site 1130804003246 dimer interface [polypeptide binding]; other site 1130804003247 putative PBP binding regions; other site 1130804003248 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 1130804003249 ABC-ATPase subunit interface; other site 1130804003250 dimer interface [polypeptide binding]; other site 1130804003251 putative PBP binding regions; other site 1130804003252 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1130804003253 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1130804003254 Walker A/P-loop; other site 1130804003255 ATP binding site [chemical binding]; other site 1130804003256 Q-loop/lid; other site 1130804003257 ABC transporter signature motif; other site 1130804003258 Walker B; other site 1130804003259 D-loop; other site 1130804003260 H-loop/switch region; other site 1130804003261 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 1130804003262 MobA/MobL family; Region: MobA_MobL; pfam03389 1130804003263 potential frameshift: common BLAST hit: gi|298503777|ref|YP_003725717.1| IS1380-Spn1 transposase 1130804003264 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804003265 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804003266 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 1130804003267 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 1130804003268 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1130804003269 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 1130804003270 catalytic residues [active] 1130804003271 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1130804003272 Recombinase; Region: Recombinase; pfam07508 1130804003273 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1130804003274 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 1130804003275 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 1130804003276 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1130804003277 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1130804003278 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1130804003279 homodimer interface [polypeptide binding]; other site 1130804003280 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1130804003281 active site 1130804003282 homodimer interface [polypeptide binding]; other site 1130804003283 catalytic site [active] 1130804003284 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1130804003285 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1130804003286 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804003287 Coenzyme A binding pocket [chemical binding]; other site 1130804003288 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1130804003289 conserved cys residue [active] 1130804003290 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1130804003291 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 1130804003292 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1130804003293 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1130804003294 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1130804003295 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 1130804003296 zinc binding site [ion binding]; other site 1130804003297 putative ligand binding site [chemical binding]; other site 1130804003298 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1130804003299 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 1130804003300 TM-ABC transporter signature motif; other site 1130804003301 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1130804003302 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804003303 Walker A/P-loop; other site 1130804003304 ATP binding site [chemical binding]; other site 1130804003305 Q-loop/lid; other site 1130804003306 ABC transporter signature motif; other site 1130804003307 Walker B; other site 1130804003308 D-loop; other site 1130804003309 H-loop/switch region; other site 1130804003310 DNA primase; Validated; Region: dnaG; PRK05667 1130804003311 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1130804003312 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1130804003313 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 1130804003314 active site 1130804003315 metal binding site [ion binding]; metal-binding site 1130804003316 interdomain interaction site; other site 1130804003317 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1130804003318 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1130804003319 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1130804003320 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1130804003321 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1130804003322 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 1130804003323 DNA binding residues [nucleotide binding] 1130804003324 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1130804003325 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1130804003326 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 1130804003327 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1130804003328 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 1130804003329 putative ADP-binding pocket [chemical binding]; other site 1130804003330 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 1130804003331 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 1130804003332 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1130804003333 GTP1/OBG; Region: GTP1_OBG; pfam01018 1130804003334 Obg GTPase; Region: Obg; cd01898 1130804003335 G1 box; other site 1130804003336 GTP/Mg2+ binding site [chemical binding]; other site 1130804003337 Switch I region; other site 1130804003338 G2 box; other site 1130804003339 G3 box; other site 1130804003340 Switch II region; other site 1130804003341 G4 box; other site 1130804003342 G5 box; other site 1130804003343 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1130804003344 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804003345 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804003346 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1130804003347 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1130804003348 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 1130804003349 hinge; other site 1130804003350 active site 1130804003351 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1130804003352 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1130804003353 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1130804003354 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1130804003355 DNA-binding site [nucleotide binding]; DNA binding site 1130804003356 DRTGG domain; Region: DRTGG; pfam07085 1130804003357 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 1130804003358 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 1130804003359 active site 2 [active] 1130804003360 active site 1 [active] 1130804003361 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 1130804003362 active site 1130804003363 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 1130804003364 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1130804003365 Part of AAA domain; Region: AAA_19; pfam13245 1130804003366 Family description; Region: UvrD_C_2; pfam13538 1130804003367 hypothetical protein; Reviewed; Region: PRK00024 1130804003368 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1130804003369 MPN+ (JAMM) motif; other site 1130804003370 Zinc-binding site [ion binding]; other site 1130804003371 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1130804003372 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1130804003373 catalytic triad [active] 1130804003374 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 1130804003375 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1130804003376 CoA binding domain; Region: CoA_binding; pfam02629 1130804003377 Putative amino acid metabolism; Region: DUF1831; pfam08866 1130804003378 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1130804003379 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1130804003380 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1130804003381 catalytic residue [active] 1130804003382 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 1130804003383 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1130804003384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1130804003385 active site 1130804003386 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1130804003387 putative active site [active] 1130804003388 putative metal binding residues [ion binding]; other site 1130804003389 signature motif; other site 1130804003390 putative triphosphate binding site [ion binding]; other site 1130804003391 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1130804003392 synthetase active site [active] 1130804003393 NTP binding site [chemical binding]; other site 1130804003394 metal binding site [ion binding]; metal-binding site 1130804003395 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1130804003396 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1130804003397 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1130804003398 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 1130804003399 RNA binding surface [nucleotide binding]; other site 1130804003400 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1130804003401 active site 1130804003402 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1130804003403 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804003404 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804003405 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1130804003406 hypothetical protein; Validated; Region: PRK00153 1130804003407 Predicted membrane protein [Function unknown]; Region: COG3619 1130804003408 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1130804003409 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 1130804003410 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1130804003411 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1130804003412 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1130804003413 active site 1130804003414 Riboflavin kinase; Region: Flavokinase; smart00904 1130804003415 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1130804003416 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1130804003417 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1130804003418 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1130804003419 EDD domain protein, DegV family; Region: DegV; TIGR00762 1130804003420 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1130804003421 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 1130804003422 IHF dimer interface [polypeptide binding]; other site 1130804003423 IHF - DNA interface [nucleotide binding]; other site 1130804003424 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1130804003425 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804003426 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804003427 ABC transporter; Region: ABC_tran_2; pfam12848 1130804003428 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804003429 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 1130804003430 non-specific DNA binding site [nucleotide binding]; other site 1130804003431 salt bridge; other site 1130804003432 sequence-specific DNA binding site [nucleotide binding]; other site 1130804003433 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1130804003434 H+ Antiporter protein; Region: 2A0121; TIGR00900 1130804003435 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 1130804003436 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1130804003437 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 1130804003438 nucleotide binding pocket [chemical binding]; other site 1130804003439 K-X-D-G motif; other site 1130804003440 catalytic site [active] 1130804003441 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1130804003442 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1130804003443 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 1130804003444 Dimer interface [polypeptide binding]; other site 1130804003445 BRCT sequence motif; other site 1130804003446 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 1130804003447 pullulanase, type I; Region: pulA_typeI; TIGR02104 1130804003448 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 1130804003449 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 1130804003450 Ca binding site [ion binding]; other site 1130804003451 active site 1130804003452 catalytic site [active] 1130804003453 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1130804003454 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 1130804003455 tetrameric interface [polypeptide binding]; other site 1130804003456 activator binding site; other site 1130804003457 NADP binding site [chemical binding]; other site 1130804003458 substrate binding site [chemical binding]; other site 1130804003459 catalytic residues [active] 1130804003460 glycogen branching enzyme; Provisional; Region: PRK12313 1130804003461 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1130804003462 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1130804003463 active site 1130804003464 catalytic site [active] 1130804003465 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1130804003466 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1130804003467 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1130804003468 ligand binding site; other site 1130804003469 oligomer interface; other site 1130804003470 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 1130804003471 dimer interface [polypeptide binding]; other site 1130804003472 N-terminal domain interface [polypeptide binding]; other site 1130804003473 sulfate 1 binding site; other site 1130804003474 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 1130804003475 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 1130804003476 active site 1130804003477 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 1130804003478 dimer interface [polypeptide binding]; other site 1130804003479 N-terminal domain interface [polypeptide binding]; other site 1130804003480 sulfate 1 binding site; other site 1130804003481 glycogen synthase; Provisional; Region: glgA; PRK00654 1130804003482 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 1130804003483 ADP-binding pocket [chemical binding]; other site 1130804003484 homodimer interface [polypeptide binding]; other site 1130804003485 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1130804003486 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1130804003487 Uncharacterized conserved protein [Function unknown]; Region: COG5506 1130804003488 enolase; Provisional; Region: eno; PRK00077 1130804003489 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 1130804003490 dimer interface [polypeptide binding]; other site 1130804003491 metal binding site [ion binding]; metal-binding site 1130804003492 substrate binding pocket [chemical binding]; other site 1130804003493 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804003494 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804003495 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1130804003496 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804003497 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1130804003498 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1130804003499 Helix-turn-helix domain; Region: HTH_28; pfam13518 1130804003500 Winged helix-turn helix; Region: HTH_29; pfam13551 1130804003501 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 1130804003502 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1130804003503 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1130804003504 Part of AAA domain; Region: AAA_19; pfam13245 1130804003505 Family description; Region: UvrD_C_2; pfam13538 1130804003506 Family description; Region: UvrD_C_2; pfam13538 1130804003507 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1130804003508 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1130804003509 G5 domain; Region: G5; pfam07501 1130804003510 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 1130804003511 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 1130804003512 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1130804003513 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1130804003514 GTP/Mg2+ binding site [chemical binding]; other site 1130804003515 G4 box; other site 1130804003516 G5 box; other site 1130804003517 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1130804003518 G1 box; other site 1130804003519 G1 box; other site 1130804003520 GTP/Mg2+ binding site [chemical binding]; other site 1130804003521 Switch I region; other site 1130804003522 G2 box; other site 1130804003523 G2 box; other site 1130804003524 G3 box; other site 1130804003525 G3 box; other site 1130804003526 Switch II region; other site 1130804003527 Switch II region; other site 1130804003528 G5 box; other site 1130804003529 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1130804003530 RNA/DNA hybrid binding site [nucleotide binding]; other site 1130804003531 active site 1130804003532 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 1130804003533 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1130804003534 Cl- selectivity filter; other site 1130804003535 Cl- binding residues [ion binding]; other site 1130804003536 pore gating glutamate residue; other site 1130804003537 dimer interface [polypeptide binding]; other site 1130804003538 H+/Cl- coupling transport residue; other site 1130804003539 TrkA-C domain; Region: TrkA_C; pfam02080 1130804003540 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1130804003541 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 1130804003542 active site 1130804003543 DNA binding site [nucleotide binding] 1130804003544 Int/Topo IB signature motif; other site 1130804003545 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1130804003546 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1130804003547 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1130804003548 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 1130804003549 E3 interaction surface; other site 1130804003550 lipoyl attachment site [posttranslational modification]; other site 1130804003551 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 1130804003552 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1130804003553 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1130804003554 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1130804003555 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 1130804003556 e3 binding domain; Region: E3_binding; pfam02817 1130804003557 e3 binding domain; Region: E3_binding; pfam02817 1130804003558 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1130804003559 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1130804003560 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 1130804003561 alpha subunit interface [polypeptide binding]; other site 1130804003562 TPP binding site [chemical binding]; other site 1130804003563 heterodimer interface [polypeptide binding]; other site 1130804003564 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1130804003565 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1130804003566 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 1130804003567 tetramer interface [polypeptide binding]; other site 1130804003568 TPP-binding site [chemical binding]; other site 1130804003569 heterodimer interface [polypeptide binding]; other site 1130804003570 phosphorylation loop region [posttranslational modification] 1130804003571 multidrug efflux protein; Reviewed; Region: PRK01766 1130804003572 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1130804003573 cation binding site [ion binding]; other site 1130804003574 dihydroorotase; Validated; Region: pyrC; PRK09357 1130804003575 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 1130804003576 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 1130804003577 active site 1130804003578 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 1130804003579 putative active site [active] 1130804003580 nucleotide binding site [chemical binding]; other site 1130804003581 nudix motif; other site 1130804003582 putative metal binding site [ion binding]; other site 1130804003583 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1130804003584 ligand binding site [chemical binding]; other site 1130804003585 active site 1130804003586 UGI interface [polypeptide binding]; other site 1130804003587 catalytic site [active] 1130804003588 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 1130804003589 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 1130804003590 motif II; other site 1130804003591 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 1130804003592 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 1130804003593 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003594 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003595 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1130804003596 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1130804003597 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 1130804003598 metal binding site [ion binding]; metal-binding site 1130804003599 amino acid transporter; Region: 2A0306; TIGR00909 1130804003600 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1130804003601 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 1130804003602 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1130804003603 catalytic residues [active] 1130804003604 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1130804003605 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1130804003606 Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases; Region: TM_EGFR-like; cl17045 1130804003607 dimer interface [polypeptide binding]; other site 1130804003608 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1130804003609 Helix-turn-helix domain; Region: HTH_28; pfam13518 1130804003610 Winged helix-turn helix; Region: HTH_29; pfam13551 1130804003611 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1130804003612 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804003613 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804003614 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 1130804003615 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1130804003616 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 1130804003617 putative active site [active] 1130804003618 catalytic site [active] 1130804003619 putative metal binding site [ion binding]; other site 1130804003620 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1130804003621 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1130804003622 active site 1130804003623 catalytic site [active] 1130804003624 substrate binding site [chemical binding]; other site 1130804003625 MarR family; Region: MarR_2; cl17246 1130804003626 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1130804003627 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1130804003628 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 1130804003629 dimer interface [polypeptide binding]; other site 1130804003630 ADP-ribose binding site [chemical binding]; other site 1130804003631 active site 1130804003632 nudix motif; other site 1130804003633 metal binding site [ion binding]; metal-binding site 1130804003634 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1130804003635 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1130804003636 Substrate binding site; other site 1130804003637 Mg++ binding site; other site 1130804003638 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 1130804003639 active site 1130804003640 substrate binding site [chemical binding]; other site 1130804003641 CoA binding site [chemical binding]; other site 1130804003642 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1130804003643 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 1130804003644 active site 1130804003645 Predicted membrane protein [Function unknown]; Region: COG2035 1130804003646 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 1130804003647 putative deacylase active site [active] 1130804003648 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 1130804003649 catalytic core [active] 1130804003650 Integrase core domain; Region: rve; pfam00665 1130804003651 Integrase core domain; Region: rve_2; pfam13333 1130804003652 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 1130804003653 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1130804003654 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1130804003655 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 1130804003656 S-adenosylmethionine binding site [chemical binding]; other site 1130804003657 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1130804003658 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1130804003659 active site 1130804003660 Zn binding site [ion binding]; other site 1130804003661 Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]; Region: CoiA; COG4469 1130804003662 tellurite resistance protein TehB; Provisional; Region: PRK12335 1130804003663 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1130804003664 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 1130804003665 S-adenosylmethionine binding site [chemical binding]; other site 1130804003666 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 1130804003667 SmpB-tmRNA interface; other site 1130804003668 ribonuclease R; Region: RNase_R; TIGR02063 1130804003669 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1130804003670 RNB domain; Region: RNB; pfam00773 1130804003671 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 1130804003672 RNA binding site [nucleotide binding]; other site 1130804003673 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1130804003674 drug efflux system protein MdtG; Provisional; Region: PRK09874 1130804003675 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 1130804003676 putative substrate translocation pore; other site 1130804003677 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 1130804003678 dephospho-CoA kinase; Region: TIGR00152 1130804003679 CoA-binding site [chemical binding]; other site 1130804003680 ATP-binding [chemical binding]; other site 1130804003681 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1130804003682 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1130804003683 DNA binding site [nucleotide binding] 1130804003684 catalytic residue [active] 1130804003685 H2TH interface [polypeptide binding]; other site 1130804003686 putative catalytic residues [active] 1130804003687 turnover-facilitating residue; other site 1130804003688 intercalation triad [nucleotide binding]; other site 1130804003689 8OG recognition residue [nucleotide binding]; other site 1130804003690 putative reading head residues; other site 1130804003691 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1130804003692 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1130804003693 GTPase Era; Reviewed; Region: era; PRK00089 1130804003694 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1130804003695 G1 box; other site 1130804003696 GTP/Mg2+ binding site [chemical binding]; other site 1130804003697 Switch I region; other site 1130804003698 G2 box; other site 1130804003699 Switch II region; other site 1130804003700 G3 box; other site 1130804003701 G4 box; other site 1130804003702 G5 box; other site 1130804003703 KH domain; Region: KH_2; pfam07650 1130804003704 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1130804003705 metal-binding heat shock protein; Provisional; Region: PRK00016 1130804003706 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 1130804003707 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1130804003708 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804003709 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1130804003710 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1130804003711 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 1130804003712 heterodimer interface [polypeptide binding]; other site 1130804003713 active site 1130804003714 FMN binding site [chemical binding]; other site 1130804003715 homodimer interface [polypeptide binding]; other site 1130804003716 substrate binding site [chemical binding]; other site 1130804003717 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1130804003718 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 1130804003719 FAD binding pocket [chemical binding]; other site 1130804003720 FAD binding motif [chemical binding]; other site 1130804003721 phosphate binding motif [ion binding]; other site 1130804003722 beta-alpha-beta structure motif; other site 1130804003723 NAD binding pocket [chemical binding]; other site 1130804003724 Iron coordination center [ion binding]; other site 1130804003725 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1130804003726 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1130804003727 dimer interface [polypeptide binding]; other site 1130804003728 active site 1130804003729 metal binding site [ion binding]; metal-binding site 1130804003730 glutathione binding site [chemical binding]; other site 1130804003731 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1130804003732 23S rRNA binding site [nucleotide binding]; other site 1130804003733 L21 binding site [polypeptide binding]; other site 1130804003734 L13 binding site [polypeptide binding]; other site 1130804003735 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1130804003736 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1130804003737 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1130804003738 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1130804003739 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 1130804003740 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1130804003741 Walker A/P-loop; other site 1130804003742 ATP binding site [chemical binding]; other site 1130804003743 Q-loop/lid; other site 1130804003744 ABC transporter signature motif; other site 1130804003745 Walker B; other site 1130804003746 D-loop; other site 1130804003747 H-loop/switch region; other site 1130804003748 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1130804003749 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1130804003750 Competence protein; Region: Competence; pfam03772 1130804003751 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1130804003752 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1130804003753 SLBB domain; Region: SLBB; pfam10531 1130804003754 comEA protein; Region: comE; TIGR01259 1130804003755 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1130804003756 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1130804003757 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1130804003758 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1130804003759 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1130804003760 NAD binding site [chemical binding]; other site 1130804003761 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1130804003762 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 1130804003763 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1130804003764 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804003765 Coenzyme A binding pocket [chemical binding]; other site 1130804003766 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1130804003767 PhoH-like protein; Region: PhoH; pfam02562 1130804003768 hypothetical protein; Provisional; Region: PRK13672 1130804003769 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1130804003770 S1 domain; Region: S1_2; pfam13509 1130804003771 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1130804003772 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 1130804003773 hinge region; other site 1130804003774 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 1130804003775 putative nucleotide binding site [chemical binding]; other site 1130804003776 uridine monophosphate binding site [chemical binding]; other site 1130804003777 homohexameric interface [polypeptide binding]; other site 1130804003778 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1130804003779 Glucose inhibited division protein A; Region: GIDA; pfam01134 1130804003780 Predicted methyltransferases [General function prediction only]; Region: COG0313 1130804003781 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1130804003782 putative SAM binding site [chemical binding]; other site 1130804003783 putative homodimer interface [polypeptide binding]; other site 1130804003784 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 1130804003785 DNA polymerase III subunit delta'; Validated; Region: PRK07276 1130804003786 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1130804003787 thymidylate kinase; Validated; Region: tmk; PRK00698 1130804003788 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 1130804003789 TMP-binding site; other site 1130804003790 ATP-binding site [chemical binding]; other site 1130804003791 pyrroline-5-carboxylate reductase; Region: PLN02688 1130804003792 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1130804003793 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1130804003794 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1130804003795 putative catalytic cysteine [active] 1130804003796 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 1130804003797 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 1130804003798 nucleotide binding site [chemical binding]; other site 1130804003799 homotetrameric interface [polypeptide binding]; other site 1130804003800 putative phosphate binding site [ion binding]; other site 1130804003801 putative allosteric binding site; other site 1130804003802 PUA domain; Region: PUA; pfam01472 1130804003803 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1130804003804 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1130804003805 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804003806 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1130804003807 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 1130804003808 RNA binding surface [nucleotide binding]; other site 1130804003809 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1130804003810 active site 1130804003811 lipoprotein signal peptidase; Provisional; Region: PRK14797 1130804003812 lipoprotein signal peptidase; Provisional; Region: PRK14787 1130804003813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1130804003814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1130804003815 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 1130804003816 dimerization interface [polypeptide binding]; other site 1130804003817 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1130804003818 CAAX protease self-immunity; Region: Abi; pfam02517 1130804003819 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 1130804003820 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1130804003821 active site 1130804003822 motif I; other site 1130804003823 motif II; other site 1130804003824 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 1130804003825 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1130804003826 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1130804003827 putative active site; other site 1130804003828 catalytic triad [active] 1130804003829 putative dimer interface [polypeptide binding]; other site 1130804003830 agmatine deiminase; Provisional; Region: PRK13551 1130804003831 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1130804003832 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1130804003833 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1130804003834 dimer interface [polypeptide binding]; other site 1130804003835 active site 1130804003836 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1130804003837 catalytic residues [active] 1130804003838 substrate binding site [chemical binding]; other site 1130804003839 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1130804003840 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 1130804003841 spermidine synthase; Provisional; Region: PRK00811 1130804003842 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 1130804003843 S-adenosylmethionine binding site [chemical binding]; other site 1130804003844 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1130804003845 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1130804003846 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1130804003847 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 1130804003848 homodimer interface [polypeptide binding]; other site 1130804003849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804003850 catalytic residue [active] 1130804003851 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1130804003852 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1130804003853 Helix-turn-helix domain; Region: HTH_38; pfam13936 1130804003854 Integrase core domain; Region: rve; pfam00665 1130804003855 CCC1-related family of proteins; Region: CCC1_like; cl00278 1130804003856 FtsX-like permease family; Region: FtsX; pfam02687 1130804003857 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1130804003858 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1130804003859 Walker A/P-loop; other site 1130804003860 ATP binding site [chemical binding]; other site 1130804003861 Q-loop/lid; other site 1130804003862 ABC transporter signature motif; other site 1130804003863 Walker B; other site 1130804003864 D-loop; other site 1130804003865 H-loop/switch region; other site 1130804003866 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 1130804003867 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1130804003868 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1130804003869 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1130804003870 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 1130804003871 RNA binding site [nucleotide binding]; other site 1130804003872 Predicted permeases [General function prediction only]; Region: COG0701 1130804003873 Predicted membrane protein [Function unknown]; Region: COG3689 1130804003874 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 1130804003875 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 1130804003876 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804003877 pyruvate kinase; Provisional; Region: PRK05826 1130804003878 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 1130804003879 domain interfaces; other site 1130804003880 active site 1130804003881 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 1130804003882 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1130804003883 active site 1130804003884 ADP/pyrophosphate binding site [chemical binding]; other site 1130804003885 dimerization interface [polypeptide binding]; other site 1130804003886 allosteric effector site; other site 1130804003887 fructose-1,6-bisphosphate binding site; other site 1130804003888 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 1130804003889 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1130804003890 active site 1130804003891 PHP Thumb interface [polypeptide binding]; other site 1130804003892 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 1130804003893 generic binding surface II; other site 1130804003894 generic binding surface I; other site 1130804003895 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 1130804003896 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 1130804003897 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1130804003898 Arginine repressor [Transcription]; Region: ArgR; COG1438 1130804003899 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1130804003900 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1130804003901 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 1130804003902 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1130804003903 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1130804003904 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 1130804003905 ATP binding site [chemical binding]; other site 1130804003906 putative Mg++ binding site [ion binding]; other site 1130804003907 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 1130804003908 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1130804003909 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1130804003910 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1130804003911 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1130804003912 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 1130804003913 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 1130804003914 active site 1130804003915 catalytic residues [active] 1130804003916 DNA binding site [nucleotide binding] 1130804003917 Int/Topo IB signature motif; other site 1130804003918 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 1130804003919 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1130804003920 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1130804003921 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1130804003922 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1130804003923 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1130804003924 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1130804003925 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1130804003926 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1130804003927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1130804003928 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1130804003929 Putative esterase; Region: Esterase; pfam00756 1130804003930 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1130804003931 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1130804003932 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 1130804003933 Ligand Binding Site [chemical binding]; other site 1130804003934 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1130804003935 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1130804003936 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1130804003937 catalytic residue [active] 1130804003938 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1130804003939 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1130804003940 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1130804003941 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1130804003942 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1130804003943 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 1130804003944 active site 1130804003945 phosphorylation site [posttranslational modification] 1130804003946 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 1130804003947 active site 1130804003948 P-loop; other site 1130804003949 phosphorylation site [posttranslational modification] 1130804003950 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1130804003951 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1130804003952 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 1130804003953 putative substrate binding site [chemical binding]; other site 1130804003954 putative ATP binding site [chemical binding]; other site 1130804003955 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1130804003956 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1130804003957 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1130804003958 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1130804003959 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1130804003960 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1130804003961 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1130804003962 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1130804003963 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1130804003964 FeS assembly protein SufB; Region: sufB; TIGR01980 1130804003965 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1130804003966 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1130804003967 trimerization site [polypeptide binding]; other site 1130804003968 active site 1130804003969 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1130804003970 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 1130804003971 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1130804003972 catalytic residue [active] 1130804003973 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1130804003974 FeS assembly protein SufD; Region: sufD; TIGR01981 1130804003975 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1130804003976 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1130804003977 Walker A/P-loop; other site 1130804003978 ATP binding site [chemical binding]; other site 1130804003979 Q-loop/lid; other site 1130804003980 ABC transporter signature motif; other site 1130804003981 Walker B; other site 1130804003982 D-loop; other site 1130804003983 H-loop/switch region; other site 1130804003984 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 1130804003985 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1130804003986 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 1130804003987 Walker A motif; other site 1130804003988 ATP binding site [chemical binding]; other site 1130804003989 Walker B motif; other site 1130804003990 arginine finger; other site 1130804003991 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1130804003992 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1130804003993 GAF domain; Region: GAF_2; pfam13185 1130804003994 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1130804003995 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804003996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804003997 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804003998 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1130804003999 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 1130804004000 RNA binding site [nucleotide binding]; other site 1130804004001 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 1130804004002 RNA binding site [nucleotide binding]; other site 1130804004003 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 1130804004004 RNA binding site [nucleotide binding]; other site 1130804004005 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 1130804004006 RNA binding site [nucleotide binding]; other site 1130804004007 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1130804004008 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 1130804004009 putative substrate binding pocket [chemical binding]; other site 1130804004010 AC domain interface; other site 1130804004011 catalytic triad [active] 1130804004012 AB domain interface; other site 1130804004013 interchain disulfide; other site 1130804004014 Predicted membrane protein [Function unknown]; Region: COG3817 1130804004015 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1130804004016 Predicted membrane protein [Function unknown]; Region: COG3819 1130804004017 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 1130804004018 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 1130804004019 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1130804004020 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 1130804004021 homodimer interface [polypeptide binding]; other site 1130804004022 substrate-cofactor binding pocket; other site 1130804004023 catalytic residue [active] 1130804004024 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 1130804004025 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 1130804004026 CAP-like domain; other site 1130804004027 active site 1130804004028 primary dimer interface [polypeptide binding]; other site 1130804004029 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1130804004030 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 1130804004031 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 1130804004032 Mg2+ binding site [ion binding]; other site 1130804004033 G-X-G motif; other site 1130804004034 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 1130804004035 anchoring element; other site 1130804004036 dimer interface [polypeptide binding]; other site 1130804004037 ATP binding site [chemical binding]; other site 1130804004038 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 1130804004039 active site 1130804004040 putative metal-binding site [ion binding]; other site 1130804004041 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1130804004042 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1130804004043 putative transposase OrfB; Reviewed; Region: PHA02517 1130804004044 HTH-like domain; Region: HTH_21; pfam13276 1130804004045 Integrase core domain; Region: rve; pfam00665 1130804004046 Integrase core domain; Region: rve_2; pfam13333 1130804004047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1130804004048 Helix-turn-helix domain; Region: HTH_28; pfam13518 1130804004049 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1130804004050 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 1130804004051 TM-ABC transporter signature motif; other site 1130804004052 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1130804004053 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 1130804004054 TM-ABC transporter signature motif; other site 1130804004055 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1130804004056 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1130804004057 Walker A/P-loop; other site 1130804004058 ATP binding site [chemical binding]; other site 1130804004059 Q-loop/lid; other site 1130804004060 ABC transporter signature motif; other site 1130804004061 Walker B; other site 1130804004062 D-loop; other site 1130804004063 H-loop/switch region; other site 1130804004064 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1130804004065 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1130804004066 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 1130804004067 ligand binding site [chemical binding]; other site 1130804004068 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 1130804004069 active site 1130804004070 catalytic motif [active] 1130804004071 Zn binding site [ion binding]; other site 1130804004072 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1130804004073 intersubunit interface [polypeptide binding]; other site 1130804004074 active site 1130804004075 catalytic residue [active] 1130804004076 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1130804004077 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1130804004078 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1130804004079 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1130804004080 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1130804004081 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 1130804004082 S-adenosylmethionine binding site [chemical binding]; other site 1130804004083 pantothenate kinase; Provisional; Region: PRK05439 1130804004084 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 1130804004085 ATP-binding site [chemical binding]; other site 1130804004086 CoA-binding site [chemical binding]; other site 1130804004087 Mg2+-binding site [ion binding]; other site 1130804004088 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1130804004089 topology modulation protein; Provisional; Region: PRK07261 1130804004090 AAA domain; Region: AAA_17; pfam13207 1130804004091 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1130804004092 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 1130804004093 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 1130804004094 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 1130804004095 nucleophilic elbow; other site 1130804004096 catalytic triad; other site 1130804004097 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1130804004098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 1130804004099 phosphopentomutase; Provisional; Region: PRK05362 1130804004100 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1130804004101 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 1130804004102 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1130804004103 active site 1130804004104 dimer interface [polypeptide binding]; other site 1130804004105 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 1130804004106 putative substrate binding site [chemical binding]; other site 1130804004107 putative ATP binding site [chemical binding]; other site 1130804004108 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 1130804004109 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1130804004110 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1130804004111 homodimer interface [polypeptide binding]; other site 1130804004112 NADP binding site [chemical binding]; other site 1130804004113 substrate binding site [chemical binding]; other site 1130804004114 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1130804004115 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1130804004116 Walker A/P-loop; other site 1130804004117 ATP binding site [chemical binding]; other site 1130804004118 Q-loop/lid; other site 1130804004119 ABC transporter signature motif; other site 1130804004120 Walker B; other site 1130804004121 D-loop; other site 1130804004122 H-loop/switch region; other site 1130804004123 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1130804004124 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 1130804004125 dimer interface [polypeptide binding]; other site 1130804004126 conserved gate region; other site 1130804004127 putative PBP binding loops; other site 1130804004128 ABC-ATPase subunit interface; other site 1130804004129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 1130804004130 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1130804004131 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 1130804004132 Walker A motif; other site 1130804004133 ATP binding site [chemical binding]; other site 1130804004134 Walker B motif; other site 1130804004135 arginine finger; other site 1130804004136 UvrB/uvrC motif; Region: UVR; pfam02151 1130804004137 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 1130804004138 Walker A motif; other site 1130804004139 ATP binding site [chemical binding]; other site 1130804004140 Walker B motif; other site 1130804004141 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1130804004142 Helix-turn-helix domain; Region: HTH_28; pfam13518 1130804004143 Winged helix-turn helix; Region: HTH_29; pfam13551 1130804004144 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 1130804004145 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 1130804004146 putative transposase OrfB; Reviewed; Region: PHA02517 1130804004147 HTH-like domain; Region: HTH_21; pfam13276 1130804004148 Integrase core domain; Region: rve; pfam00665 1130804004149 Integrase core domain; Region: rve_2; pfam13333 1130804004150 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1130804004151 Homeodomain-like domain; Region: HTH_23; cl17451 1130804004152 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1130804004153 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1130804004154 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1130804004155 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1130804004156 Winged helix-turn helix; Region: HTH_33; pfam13592 1130804004157 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 1130804004158 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1130804004159 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 1130804004160 Mg2+ binding site [ion binding]; other site 1130804004161 G-X-G motif; other site 1130804004162 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 1130804004163 anchoring element; other site 1130804004164 dimer interface [polypeptide binding]; other site 1130804004165 ATP binding site [chemical binding]; other site 1130804004166 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 1130804004167 active site 1130804004168 putative metal-binding site [ion binding]; other site 1130804004169 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1130804004170 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1130804004171 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 1130804004172 motif II; other site 1130804004173 DJ-1 family protein; Region: not_thiJ; TIGR01383 1130804004174 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1130804004175 conserved cys residue [active] 1130804004176 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1130804004177 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 1130804004178 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1130804004179 active site 1130804004180 catalytic site [active] 1130804004181 substrate binding site [chemical binding]; other site 1130804004182 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 1130804004183 ATP binding site [chemical binding]; other site 1130804004184 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1130804004185 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1130804004186 Peptidase family U32; Region: Peptidase_U32; pfam01136 1130804004187 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 1130804004188 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1130804004189 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 1130804004190 dimer interface [polypeptide binding]; other site 1130804004191 phosphorylation site [posttranslational modification] 1130804004192 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 1130804004193 ATP binding site [chemical binding]; other site 1130804004194 Mg2+ binding site [ion binding]; other site 1130804004195 G-X-G motif; other site 1130804004196 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1130804004197 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 1130804004198 active site 1130804004199 phosphorylation site [posttranslational modification] 1130804004200 intermolecular recognition site; other site 1130804004201 dimerization interface [polypeptide binding]; other site 1130804004202 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 1130804004203 DNA binding site [nucleotide binding] 1130804004204 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1130804004205 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1130804004206 Zn binding site [ion binding]; other site 1130804004207 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 1130804004208 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1130804004209 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 1130804004210 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 1130804004211 nudix motif; other site 1130804004212 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 1130804004213 classical (c) SDRs; Region: SDR_c; cd05233 1130804004214 NAD(P) binding site [chemical binding]; other site 1130804004215 active site 1130804004216 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1130804004217 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 1130804004218 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1130804004219 active site 1130804004220 catalytic tetrad [active] 1130804004221 Predicted transcriptional regulators [Transcription]; Region: COG1695 1130804004222 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1130804004223 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1130804004224 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1130804004225 active site 1130804004226 HIGH motif; other site 1130804004227 KMSKS motif; other site 1130804004228 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1130804004229 tRNA binding surface [nucleotide binding]; other site 1130804004230 anticodon binding site; other site 1130804004231 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 1130804004232 dimer interface [polypeptide binding]; other site 1130804004233 putative tRNA-binding site [nucleotide binding]; other site 1130804004234 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1130804004235 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1130804004236 FtsX-like permease family; Region: FtsX; pfam02687 1130804004237 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1130804004238 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1130804004239 Walker A/P-loop; other site 1130804004240 ATP binding site [chemical binding]; other site 1130804004241 Q-loop/lid; other site 1130804004242 ABC transporter signature motif; other site 1130804004243 Walker B; other site 1130804004244 D-loop; other site 1130804004245 H-loop/switch region; other site 1130804004246 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1130804004247 HlyD family secretion protein; Region: HlyD_3; pfam13437 1130804004248 glutathione reductase; Validated; Region: PRK06116 1130804004249 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1130804004250 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1130804004251 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1130804004252 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1130804004253 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 1130804004254 ATP cone domain; Region: ATP-cone; pfam03477 1130804004255 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1130804004256 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1130804004257 RimM N-terminal domain; Region: RimM; pfam01782 1130804004258 PRC-barrel domain; Region: PRC; pfam05239 1130804004259 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1130804004260 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804004261 elongation factor Tu; Reviewed; Region: PRK00049 1130804004262 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1130804004263 G1 box; other site 1130804004264 GEF interaction site [polypeptide binding]; other site 1130804004265 GTP/Mg2+ binding site [chemical binding]; other site 1130804004266 Switch I region; other site 1130804004267 G2 box; other site 1130804004268 G3 box; other site 1130804004269 Switch II region; other site 1130804004270 G4 box; other site 1130804004271 G5 box; other site 1130804004272 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 1130804004273 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 1130804004274 Antibiotic Binding Site [chemical binding]; other site 1130804004275 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 1130804004276 amphipathic channel; other site 1130804004277 Asn-Pro-Ala signature motifs; other site 1130804004278 MucBP domain; Region: MucBP; pfam06458 1130804004279 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1130804004280 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1130804004281 Transposase; Region: HTH_Tnp_IS630; pfam01710 1130804004282 Helix-turn-helix domain; Region: HTH_28; pfam13518 1130804004283 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 1130804004284 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1130804004285 active site 1130804004286 substrate binding site [chemical binding]; other site 1130804004287 metal binding site [ion binding]; metal-binding site 1130804004288 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 1130804004289 catalytic residues [active] 1130804004290 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1130804004291 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 1130804004292 substrate binding pocket [chemical binding]; other site 1130804004293 membrane-bound complex binding site; other site 1130804004294 hinge residues; other site 1130804004295 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1130804004296 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804004297 Walker A/P-loop; other site 1130804004298 ATP binding site [chemical binding]; other site 1130804004299 Q-loop/lid; other site 1130804004300 ABC transporter signature motif; other site 1130804004301 Walker B; other site 1130804004302 D-loop; other site 1130804004303 H-loop/switch region; other site 1130804004304 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 1130804004305 dimer interface [polypeptide binding]; other site 1130804004306 conserved gate region; other site 1130804004307 putative PBP binding loops; other site 1130804004308 ABC-ATPase subunit interface; other site 1130804004309 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 1130804004310 TPR motif; other site 1130804004311 binding surface 1130804004312 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 1130804004313 binding surface 1130804004314 TPR motif; other site 1130804004315 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1130804004316 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1130804004317 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 1130804004318 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1130804004319 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1130804004320 gamma subunit interface [polypeptide binding]; other site 1130804004321 epsilon subunit interface [polypeptide binding]; other site 1130804004322 LBP interface [polypeptide binding]; other site 1130804004323 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1130804004324 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1130804004325 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 1130804004326 alpha subunit interaction interface [polypeptide binding]; other site 1130804004327 Walker A motif; other site 1130804004328 ATP binding site [chemical binding]; other site 1130804004329 Walker B motif; other site 1130804004330 inhibitor binding site; inhibition site 1130804004331 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1130804004332 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1130804004333 core domain interface [polypeptide binding]; other site 1130804004334 delta subunit interface [polypeptide binding]; other site 1130804004335 epsilon subunit interface [polypeptide binding]; other site 1130804004336 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1130804004337 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1130804004338 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 1130804004339 beta subunit interaction interface [polypeptide binding]; other site 1130804004340 Walker A motif; other site 1130804004341 ATP binding site [chemical binding]; other site 1130804004342 Walker B motif; other site 1130804004343 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1130804004344 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1130804004345 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1130804004346 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1130804004347 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1130804004348 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1130804004349 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1130804004350 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 1130804004351 potential frameshift: common BLAST hit: gi|225854959|ref|YP_002736471.1| transposase 1130804004352 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1130804004353 Integrase core domain; Region: rve; pfam00665 1130804004354 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1130804004355 Helix-turn-helix domain; Region: HTH_38; pfam13936 1130804004356 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804004357 Coenzyme A binding pocket [chemical binding]; other site 1130804004358 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1130804004359 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1130804004360 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1130804004361 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1130804004362 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1130804004363 dimerization interface [polypeptide binding]; other site 1130804004364 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1130804004365 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804004366 Coenzyme A binding pocket [chemical binding]; other site 1130804004367 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804004368 Coenzyme A binding pocket [chemical binding]; other site 1130804004369 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1130804004370 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1130804004371 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1130804004372 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1130804004373 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1130804004374 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1130804004375 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 1130804004376 ATP binding site [chemical binding]; other site 1130804004377 putative Mg++ binding site [ion binding]; other site 1130804004378 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 1130804004379 nucleotide binding region [chemical binding]; other site 1130804004380 ATP-binding site [chemical binding]; other site 1130804004381 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1130804004382 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 1130804004383 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804004384 homodimer interface [polypeptide binding]; other site 1130804004385 catalytic residue [active] 1130804004386 cystathionine gamma-synthase; Reviewed; Region: PRK07269 1130804004387 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 1130804004388 homodimer interface [polypeptide binding]; other site 1130804004389 substrate-cofactor binding pocket; other site 1130804004390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804004391 catalytic residue [active] 1130804004392 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1130804004393 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1130804004394 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804004395 Walker A/P-loop; other site 1130804004396 ATP binding site [chemical binding]; other site 1130804004397 Q-loop/lid; other site 1130804004398 ABC transporter signature motif; other site 1130804004399 Walker B; other site 1130804004400 D-loop; other site 1130804004401 H-loop/switch region; other site 1130804004402 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1130804004403 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1130804004404 peptide binding site [polypeptide binding]; other site 1130804004405 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1130804004406 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1130804004407 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 1130804004408 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1130804004409 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1130804004410 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1130804004411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 1130804004412 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1130804004413 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1130804004414 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1130804004415 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1130804004416 DHH family; Region: DHH; pfam01368 1130804004417 DHHA2 domain; Region: DHHA2; pfam02833 1130804004418 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1130804004419 GIY-YIG motif/motif A; other site 1130804004420 putative active site [active] 1130804004421 putative metal binding site [ion binding]; other site 1130804004422 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1130804004423 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 1130804004424 S-adenosylmethionine binding site [chemical binding]; other site 1130804004425 hypothetical protein; Provisional; Region: PRK07252 1130804004426 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 1130804004427 RNA binding site [nucleotide binding]; other site 1130804004428 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 1130804004429 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1130804004430 active site 1130804004431 motif I; other site 1130804004432 motif II; other site 1130804004433 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 1130804004434 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 1130804004435 active site 1130804004436 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1130804004437 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1130804004438 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 1130804004439 dimer interface [polypeptide binding]; other site 1130804004440 ssDNA binding site [nucleotide binding]; other site 1130804004441 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1130804004442 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1130804004443 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1130804004444 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 1130804004445 putative dimer interface [polypeptide binding]; other site 1130804004446 putative anticodon binding site; other site 1130804004447 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 1130804004448 homodimer interface [polypeptide binding]; other site 1130804004449 motif 1; other site 1130804004450 motif 2; other site 1130804004451 active site 1130804004452 motif 3; other site 1130804004453 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 1130804004454 active site 1130804004455 aspartate aminotransferase; Provisional; Region: PRK05764 1130804004456 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 1130804004457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804004458 homodimer interface [polypeptide binding]; other site 1130804004459 catalytic residue [active] 1130804004460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1130804004461 Predicted flavoprotein [General function prediction only]; Region: COG0431 1130804004462 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1130804004463 G5 domain; Region: G5; pfam07501 1130804004464 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 1130804004465 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1130804004466 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 1130804004467 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 1130804004468 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 1130804004469 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 1130804004470 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 1130804004471 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 1130804004472 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 1130804004473 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 1130804004474 Mga helix-turn-helix domain; Region: Mga; pfam05043 1130804004475 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 1130804004476 hypothetical protein; Validated; Region: PRK02101 1130804004477 Protein of unknown function (DUF3953); Region: DUF3953; pfam13129 1130804004478 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 1130804004479 active site 1130804004480 catalytic residues [active] 1130804004481 metal binding site [ion binding]; metal-binding site 1130804004482 putative S-transferase; Provisional; Region: PRK11752 1130804004483 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 1130804004484 C-terminal domain interface [polypeptide binding]; other site 1130804004485 GSH binding site (G-site) [chemical binding]; other site 1130804004486 dimer interface [polypeptide binding]; other site 1130804004487 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1130804004488 N-terminal domain interface [polypeptide binding]; other site 1130804004489 dimer interface [polypeptide binding]; other site 1130804004490 substrate binding pocket (H-site) [chemical binding]; other site 1130804004491 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1130804004492 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1130804004493 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1130804004494 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1130804004495 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1130804004496 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1130804004497 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1130804004498 Cation efflux family; Region: Cation_efflux; pfam01545 1130804004499 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 1130804004500 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1130804004501 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804004502 Walker A/P-loop; other site 1130804004503 ATP binding site [chemical binding]; other site 1130804004504 Q-loop/lid; other site 1130804004505 ABC transporter signature motif; other site 1130804004506 Walker B; other site 1130804004507 D-loop; other site 1130804004508 H-loop/switch region; other site 1130804004509 ABC transporter; Region: ABC_tran_2; pfam12848 1130804004510 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804004511 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1130804004512 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1130804004513 active site 1130804004514 NTP binding site [chemical binding]; other site 1130804004515 metal binding triad [ion binding]; metal-binding site 1130804004516 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1130804004517 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1130804004518 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1130804004519 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1130804004520 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1130804004521 EDD domain protein, DegV family; Region: DegV; TIGR00762 1130804004522 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1130804004523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 1130804004524 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1130804004525 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 1130804004526 active site 1130804004527 substrate binding site [chemical binding]; other site 1130804004528 metal binding site [ion binding]; metal-binding site 1130804004529 YbbR-like protein; Region: YbbR; pfam07949 1130804004530 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1130804004531 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1130804004532 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1130804004533 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1130804004534 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1130804004535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1130804004536 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1130804004537 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1130804004538 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 1130804004539 dimer interface [polypeptide binding]; other site 1130804004540 phosphate binding site [ion binding]; other site 1130804004541 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1130804004542 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 1130804004543 homotrimer interaction site [polypeptide binding]; other site 1130804004544 putative active site [active] 1130804004545 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1130804004546 G1 box; other site 1130804004547 GTP/Mg2+ binding site [chemical binding]; other site 1130804004548 Switch I region; other site 1130804004549 G2 box; other site 1130804004550 G3 box; other site 1130804004551 Switch II region; other site 1130804004552 G4 box; other site 1130804004553 G5 box; other site 1130804004554 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1130804004555 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1130804004556 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 1130804004557 Walker A motif; other site 1130804004558 ATP binding site [chemical binding]; other site 1130804004559 Walker B motif; other site 1130804004560 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1130804004561 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1130804004562 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 1130804004563 folate binding site [chemical binding]; other site 1130804004564 NADP+ binding site [chemical binding]; other site 1130804004565 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1130804004566 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1130804004567 dimerization interface [polypeptide binding]; other site 1130804004568 DPS ferroxidase diiron center [ion binding]; other site 1130804004569 ion pore; other site 1130804004570 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804004571 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 1130804004572 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1130804004573 active site 1130804004574 triosephosphate isomerase; Provisional; Region: PRK14567 1130804004575 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 1130804004576 substrate binding site [chemical binding]; other site 1130804004577 dimer interface [polypeptide binding]; other site 1130804004578 catalytic triad [active] 1130804004579 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1130804004580 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 1130804004581 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 1130804004582 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1130804004583 proposed active site lysine [active] 1130804004584 conserved cys residue [active] 1130804004585 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1130804004586 active site 1130804004587 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1130804004588 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 1130804004589 S-adenosylmethionine binding site [chemical binding]; other site 1130804004590 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1130804004591 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1130804004592 Walker A/P-loop; other site 1130804004593 ATP binding site [chemical binding]; other site 1130804004594 Q-loop/lid; other site 1130804004595 ABC transporter signature motif; other site 1130804004596 Walker B; other site 1130804004597 D-loop; other site 1130804004598 H-loop/switch region; other site 1130804004599 TOBE domain; Region: TOBE_2; pfam08402 1130804004600 Isochorismatase family; Region: Isochorismatase; pfam00857 1130804004601 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 1130804004602 catalytic triad [active] 1130804004603 conserved cis-peptide bond; other site 1130804004604 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 1130804004605 CodY GAF-like domain; Region: CodY; pfam06018 1130804004606 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 1130804004607 putative DNA binding site [nucleotide binding]; other site 1130804004608 putative Zn2+ binding site [ion binding]; other site 1130804004609 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1130804004610 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 1130804004611 ATP binding site [chemical binding]; other site 1130804004612 Mg++ binding site [ion binding]; other site 1130804004613 motif III; other site 1130804004614 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 1130804004615 nucleotide binding region [chemical binding]; other site 1130804004616 ATP-binding site [chemical binding]; other site 1130804004617 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1130804004618 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 1130804004619 putative substrate translocation pore; other site 1130804004620 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1130804004621 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1130804004622 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1130804004623 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1130804004624 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1130804004625 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1130804004626 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1130804004627 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1130804004628 catalytic triad [active] 1130804004629 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1130804004630 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1130804004631 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 1130804004632 active site 1130804004633 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1130804004634 Integrase core domain; Region: rve; pfam00665 1130804004635 Integrase core domain; Region: rve_2; pfam13333 1130804004636 HTH-like domain; Region: HTH_21; pfam13276 1130804004637 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1130804004638 Helix-turn-helix domain; Region: HTH_28; pfam13518 1130804004639 Predicted membrane protein [Function unknown]; Region: COG4720 1130804004640 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 1130804004641 dimer interface [polypeptide binding]; other site 1130804004642 substrate binding site [chemical binding]; other site 1130804004643 ATP binding site [chemical binding]; other site 1130804004644 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1130804004645 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1130804004646 dimerization interface 3.5A [polypeptide binding]; other site 1130804004647 active site 1130804004648 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 1130804004649 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1130804004650 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1130804004651 PhnA protein; Region: PhnA; pfam03831 1130804004652 cytidylate kinase; Provisional; Region: cmk; PRK00023 1130804004653 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 1130804004654 CMP-binding site; other site 1130804004655 The sites determining sugar specificity; other site 1130804004656 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1130804004657 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1130804004658 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1130804004659 Ligand binding site; other site 1130804004660 Putative Catalytic site; other site 1130804004661 DXD motif; other site 1130804004662 UDP-glucose 4-epimerase; Region: PLN02240 1130804004663 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1130804004664 NAD binding site [chemical binding]; other site 1130804004665 homodimer interface [polypeptide binding]; other site 1130804004666 active site 1130804004667 substrate binding site [chemical binding]; other site 1130804004668 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1130804004669 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1130804004670 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1130804004671 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1130804004672 Family of unknown function (DUF633); Region: DUF633; pfam04816 1130804004673 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1130804004674 Helix-turn-helix domain; Region: HTH_28; pfam13518 1130804004675 putative transposase OrfB; Reviewed; Region: PHA02517 1130804004676 HTH-like domain; Region: HTH_21; pfam13276 1130804004677 Integrase core domain; Region: rve; pfam00665 1130804004678 Integrase core domain; Region: rve_2; pfam13333 1130804004679 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1130804004680 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 1130804004681 TPP-binding site [chemical binding]; other site 1130804004682 dimer interface [polypeptide binding]; other site 1130804004683 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 1130804004684 PYR/PP interface [polypeptide binding]; other site 1130804004685 dimer interface [polypeptide binding]; other site 1130804004686 TPP binding site [chemical binding]; other site 1130804004687 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1130804004688 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1130804004689 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 1130804004690 substrate binding site [chemical binding]; other site 1130804004691 hexamer interface [polypeptide binding]; other site 1130804004692 metal binding site [ion binding]; metal-binding site 1130804004693 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1130804004694 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1130804004695 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 1130804004696 active site 1130804004697 P-loop; other site 1130804004698 phosphorylation site [posttranslational modification] 1130804004699 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 1130804004700 active site 1130804004701 phosphorylation site [posttranslational modification] 1130804004702 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 1130804004703 active site 1130804004704 phosphorylation site [posttranslational modification] 1130804004705 HTH domain; Region: HTH_11; pfam08279 1130804004706 Mga helix-turn-helix domain; Region: Mga; pfam05043 1130804004707 PRD domain; Region: PRD; pfam00874 1130804004708 PRD domain; Region: PRD; pfam00874 1130804004709 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 1130804004710 active site 1130804004711 P-loop; other site 1130804004712 phosphorylation site [posttranslational modification] 1130804004713 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1130804004714 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1130804004715 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 1130804004716 motif II; other site 1130804004717 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1130804004718 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1130804004719 putative acyl-acceptor binding pocket; other site 1130804004720 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 1130804004721 Cadmium resistance transporter; Region: Cad; pfam03596 1130804004722 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 1130804004723 16S/18S rRNA binding site [nucleotide binding]; other site 1130804004724 S13e-L30e interaction site [polypeptide binding]; other site 1130804004725 25S rRNA binding site [nucleotide binding]; other site 1130804004726 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1130804004727 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1130804004728 NAD binding site [chemical binding]; other site 1130804004729 substrate binding site [chemical binding]; other site 1130804004730 putative active site [active] 1130804004731 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1130804004732 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1130804004733 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1130804004734 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 1130804004735 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1130804004736 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 1130804004737 active site 1130804004738 dimer interface [polypeptide binding]; other site 1130804004739 motif 1; other site 1130804004740 motif 2; other site 1130804004741 motif 3; other site 1130804004742 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 1130804004743 anticodon binding site; other site 1130804004744 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1130804004745 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 1130804004746 ATP binding site [chemical binding]; other site 1130804004747 Mg2+ binding site [ion binding]; other site 1130804004748 G-X-G motif; other site 1130804004749 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1130804004750 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 1130804004751 active site 1130804004752 phosphorylation site [posttranslational modification] 1130804004753 intermolecular recognition site; other site 1130804004754 dimerization interface [polypeptide binding]; other site 1130804004755 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 1130804004756 DNA binding site [nucleotide binding] 1130804004757 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 1130804004758 nucleophilic elbow; other site 1130804004759 catalytic triad; other site 1130804004760 Predicted transcriptional regulator [Transcription]; Region: COG1959 1130804004761 Transcriptional regulator; Region: Rrf2; pfam02082 1130804004762 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 1130804004763 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1130804004764 active site 1130804004765 metal binding site [ion binding]; metal-binding site 1130804004766 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1130804004767 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1130804004768 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1130804004769 FeoA domain; Region: FeoA; pfam04023 1130804004770 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 1130804004771 putative active site [active] 1130804004772 dimerization interface [polypeptide binding]; other site 1130804004773 putative tRNAtyr binding site [nucleotide binding]; other site 1130804004774 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1130804004775 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1130804004776 Zn2+ binding site [ion binding]; other site 1130804004777 Mg2+ binding site [ion binding]; other site 1130804004778 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1130804004779 synthetase active site [active] 1130804004780 NTP binding site [chemical binding]; other site 1130804004781 metal binding site [ion binding]; metal-binding site 1130804004782 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 1130804004783 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1130804004784 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1130804004785 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1130804004786 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1130804004787 active site 1130804004788 Zn binding site [ion binding]; other site 1130804004789 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1130804004790 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1130804004791 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1130804004792 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 1130804004793 ABC-ATPase subunit interface; other site 1130804004794 dimer interface [polypeptide binding]; other site 1130804004795 putative PBP binding regions; other site 1130804004796 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1130804004797 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 1130804004798 metal binding site [ion binding]; metal-binding site 1130804004799 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 1130804004800 dimer interface [polypeptide binding]; other site 1130804004801 catalytic triad [active] 1130804004802 peroxidatic and resolving cysteines [active] 1130804004803 FtsX-like permease family; Region: FtsX; pfam02687 1130804004804 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1130804004805 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1130804004806 FtsX-like permease family; Region: FtsX; pfam02687 1130804004807 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1130804004808 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1130804004809 Walker A/P-loop; other site 1130804004810 ATP binding site [chemical binding]; other site 1130804004811 Q-loop/lid; other site 1130804004812 ABC transporter signature motif; other site 1130804004813 Walker B; other site 1130804004814 D-loop; other site 1130804004815 H-loop/switch region; other site 1130804004816 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 1130804004817 catalytic core [active] 1130804004818 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 1130804004819 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1130804004820 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1130804004821 active site 1130804004822 HIGH motif; other site 1130804004823 nucleotide binding site [chemical binding]; other site 1130804004824 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1130804004825 active site 1130804004826 KMSKS motif; other site 1130804004827 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1130804004828 tRNA binding surface [nucleotide binding]; other site 1130804004829 anticodon binding site; other site 1130804004830 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1130804004831 DivIVA domain; Region: DivI1A_domain; TIGR03544 1130804004832 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 1130804004833 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 1130804004834 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1130804004835 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 1130804004836 RNA binding surface [nucleotide binding]; other site 1130804004837 YGGT family; Region: YGGT; pfam02325 1130804004838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1130804004839 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1130804004840 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1130804004841 catalytic residue [active] 1130804004842 cell division protein FtsZ; Validated; Region: PRK09330 1130804004843 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 1130804004844 nucleotide binding site [chemical binding]; other site 1130804004845 SulA interaction site; other site 1130804004846 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1130804004847 Cell division protein FtsA; Region: FtsA; smart00842 1130804004848 Cell division protein FtsA; Region: FtsA; pfam14450 1130804004849 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 1130804004850 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 1130804004851 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 1130804004852 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 1130804004853 nudix motif; other site 1130804004854 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1130804004855 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1130804004856 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1130804004857 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1130804004858 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1130804004859 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1130804004860 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1130804004861 recombination protein RecR; Reviewed; Region: recR; PRK00076 1130804004862 RecR protein; Region: RecR; pfam02132 1130804004863 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 1130804004864 putative active site [active] 1130804004865 putative metal-binding site [ion binding]; other site 1130804004866 tetramer interface [polypeptide binding]; other site 1130804004867 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1130804004868 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1130804004869 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1130804004870 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1130804004871 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1130804004872 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1130804004873 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 1130804004874 putative active site [active] 1130804004875 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1130804004876 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1130804004877 nucleotide binding site [chemical binding]; other site 1130804004878 Class I aldolases; Region: Aldolase_Class_I; cl17187 1130804004879 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1130804004880 catalytic residue [active] 1130804004881 Protein of unknown function, DUF624; Region: DUF624; pfam04854 1130804004882 Domain of unknown function (DUF386); Region: DUF386; pfam04074 1130804004883 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1130804004884 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 1130804004885 dimer interface [polypeptide binding]; other site 1130804004886 conserved gate region; other site 1130804004887 putative PBP binding loops; other site 1130804004888 ABC-ATPase subunit interface; other site 1130804004889 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1130804004890 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 1130804004891 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 1130804004892 putative PBP binding loops; other site 1130804004893 dimer interface [polypeptide binding]; other site 1130804004894 ABC-ATPase subunit interface; other site 1130804004895 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1130804004896 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1130804004897 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1130804004898 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1130804004899 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 1130804004900 active site turn [active] 1130804004901 phosphorylation site [posttranslational modification] 1130804004902 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 1130804004903 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1130804004904 putative active site cavity [active] 1130804004905 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1130804004906 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1130804004907 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1130804004908 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 1130804004909 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 1130804004910 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 1130804004911 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 1130804004912 Asp-box motif; other site 1130804004913 catalytic site [active] 1130804004914 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1130804004915 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 1130804004916 dimer interface [polypeptide binding]; other site 1130804004917 conserved gate region; other site 1130804004918 putative PBP binding loops; other site 1130804004919 ABC-ATPase subunit interface; other site 1130804004920 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1130804004921 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 1130804004922 dimer interface [polypeptide binding]; other site 1130804004923 conserved gate region; other site 1130804004924 putative PBP binding loops; other site 1130804004925 ABC-ATPase subunit interface; other site 1130804004926 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1130804004927 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1130804004928 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 1130804004929 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 1130804004930 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 1130804004931 catalytic site [active] 1130804004932 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 1130804004933 Asp-box motif; other site 1130804004934 Asp-box motif; other site 1130804004935 catalytic site [active] 1130804004936 nonfunctional due to frameshift 1130804004937 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1130804004938 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 1130804004939 ssDNA binding site; other site 1130804004940 generic binding surface II; other site 1130804004941 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 1130804004942 ATP binding site [chemical binding]; other site 1130804004943 putative Mg++ binding site [ion binding]; other site 1130804004944 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 1130804004945 nucleotide binding region [chemical binding]; other site 1130804004946 ATP-binding site [chemical binding]; other site 1130804004947 alanine racemase; Reviewed; Region: alr; PRK00053 1130804004948 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1130804004949 active site 1130804004950 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1130804004951 dimer interface [polypeptide binding]; other site 1130804004952 substrate binding site [chemical binding]; other site 1130804004953 catalytic residues [active] 1130804004954 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1130804004955 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 1130804004956 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1130804004957 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 1130804004958 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1130804004959 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1130804004960 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1130804004961 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 1130804004962 nucleotide binding region [chemical binding]; other site 1130804004963 ATP-binding site [chemical binding]; other site 1130804004964 SEC-C motif; Region: SEC-C; pfam02810 1130804004965 protein-export membrane protein SecD; Region: secD; TIGR01129 1130804004966 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1130804004967 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1130804004968 Walker A/P-loop; other site 1130804004969 ATP binding site [chemical binding]; other site 1130804004970 Q-loop/lid; other site 1130804004971 ABC transporter signature motif; other site 1130804004972 Walker B; other site 1130804004973 D-loop; other site 1130804004974 H-loop/switch region; other site 1130804004975 GTP-binding protein Der; Reviewed; Region: PRK00093 1130804004976 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1130804004977 G1 box; other site 1130804004978 GTP/Mg2+ binding site [chemical binding]; other site 1130804004979 Switch I region; other site 1130804004980 G2 box; other site 1130804004981 Switch II region; other site 1130804004982 G3 box; other site 1130804004983 G4 box; other site 1130804004984 G5 box; other site 1130804004985 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1130804004986 G1 box; other site 1130804004987 GTP/Mg2+ binding site [chemical binding]; other site 1130804004988 Switch I region; other site 1130804004989 G2 box; other site 1130804004990 G3 box; other site 1130804004991 Switch II region; other site 1130804004992 G4 box; other site 1130804004993 G5 box; other site 1130804004994 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1130804004995 dimer interface [polypeptide binding]; other site 1130804004996 FMN binding site [chemical binding]; other site 1130804004997 NADPH bind site [chemical binding]; other site 1130804004998 primosomal protein DnaI; Reviewed; Region: PRK08939 1130804004999 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1130804005000 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 1130804005001 Walker A motif; other site 1130804005002 ATP binding site [chemical binding]; other site 1130804005003 Walker B motif; other site 1130804005004 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1130804005005 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1130804005006 ATP cone domain; Region: ATP-cone; pfam03477 1130804005007 Predicted transcriptional regulators [Transcription]; Region: COG1725 1130804005008 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1130804005009 DNA-binding site [nucleotide binding]; DNA binding site 1130804005010 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1130804005011 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1130804005012 Walker A/P-loop; other site 1130804005013 ATP binding site [chemical binding]; other site 1130804005014 Q-loop/lid; other site 1130804005015 ABC transporter signature motif; other site 1130804005016 Walker B; other site 1130804005017 D-loop; other site 1130804005018 H-loop/switch region; other site 1130804005019 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1130804005020 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1130804005021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804005022 Walker A/P-loop; other site 1130804005023 ATP binding site [chemical binding]; other site 1130804005024 Q-loop/lid; other site 1130804005025 ABC transporter signature motif; other site 1130804005026 Walker B; other site 1130804005027 D-loop; other site 1130804005028 H-loop/switch region; other site 1130804005029 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1130804005030 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1130804005031 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1130804005032 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1130804005033 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1130804005034 nucleotide binding site [chemical binding]; other site 1130804005035 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1130804005036 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 1130804005037 active site turn [active] 1130804005038 phosphorylation site [posttranslational modification] 1130804005039 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1130804005040 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 1130804005041 HPr interaction site; other site 1130804005042 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1130804005043 active site 1130804005044 phosphorylation site [posttranslational modification] 1130804005045 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1130804005046 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1130804005047 substrate binding [chemical binding]; other site 1130804005048 active site 1130804005049 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1130804005050 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1130804005051 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1130804005052 DNA binding site [nucleotide binding] 1130804005053 domain linker motif; other site 1130804005054 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 1130804005055 dimerization interface [polypeptide binding]; other site 1130804005056 ligand binding site [chemical binding]; other site 1130804005057 sodium binding site [ion binding]; other site 1130804005058 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1130804005059 homodimer interface [polypeptide binding]; other site 1130804005060 catalytic residues [active] 1130804005061 NAD binding site [chemical binding]; other site 1130804005062 substrate binding pocket [chemical binding]; other site 1130804005063 flexible flap; other site 1130804005064 "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 1130804005065 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1130804005066 dimer interface [polypeptide binding]; other site 1130804005067 active site 1130804005068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1130804005069 Uncharacterized conserved protein [Function unknown]; Region: COG3610 1130804005070 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1130804005071 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1130804005072 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1130804005073 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1130804005074 active site 1130804005075 ATP binding site [chemical binding]; other site 1130804005076 substrate binding site [chemical binding]; other site 1130804005077 activation loop (A-loop); other site 1130804005078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1130804005079 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 1130804005080 PASTA domain; Region: PASTA; smart00740 1130804005081 PASTA domain; Region: PASTA; smart00740 1130804005082 PASTA domain; Region: PASTA; smart00740 1130804005083 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 1130804005084 active site 1130804005085 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1130804005086 NusB family; Region: NusB; pfam01029 1130804005087 putative RNA binding site [nucleotide binding]; other site 1130804005088 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 1130804005089 S-adenosylmethionine binding site [chemical binding]; other site 1130804005090 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1130804005091 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1130804005092 putative active site [active] 1130804005093 substrate binding site [chemical binding]; other site 1130804005094 putative cosubstrate binding site; other site 1130804005095 catalytic site [active] 1130804005096 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1130804005097 substrate binding site [chemical binding]; other site 1130804005098 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1130804005099 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 1130804005100 ATP binding site [chemical binding]; other site 1130804005101 putative Mg++ binding site [ion binding]; other site 1130804005102 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1130804005103 ATP-binding site [chemical binding]; other site 1130804005104 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1130804005105 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1130804005106 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 1130804005107 catalytic site [active] 1130804005108 G-X2-G-X-G-K; other site 1130804005109 hypothetical protein; Provisional; Region: PRK00106 1130804005110 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1130804005111 Zn2+ binding site [ion binding]; other site 1130804005112 Mg2+ binding site [ion binding]; other site 1130804005113 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1130804005114 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804005115 hypothetical protein; Provisional; Region: PRK13670 1130804005116 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 1130804005117 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1130804005118 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 1130804005119 S-adenosylmethionine binding site [chemical binding]; other site 1130804005120 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1130804005121 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 1130804005122 Isochorismatase family; Region: Isochorismatase; pfam00857 1130804005123 catalytic triad [active] 1130804005124 conserved cis-peptide bond; other site 1130804005125 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1130804005126 Zn2+ binding site [ion binding]; other site 1130804005127 Mg2+ binding site [ion binding]; other site 1130804005128 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1130804005129 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1130804005130 active site 1130804005131 (T/H)XGH motif; other site 1130804005132 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1130804005133 GTPase YqeH; Provisional; Region: PRK13796 1130804005134 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1130804005135 GTP/Mg2+ binding site [chemical binding]; other site 1130804005136 G4 box; other site 1130804005137 G5 box; other site 1130804005138 G1 box; other site 1130804005139 Switch I region; other site 1130804005140 G2 box; other site 1130804005141 G3 box; other site 1130804005142 Switch II region; other site 1130804005143 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1130804005144 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 1130804005145 active site 1130804005146 motif I; other site 1130804005147 motif II; other site 1130804005148 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1130804005149 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1130804005150 Cl binding site [ion binding]; other site 1130804005151 oligomer interface [polypeptide binding]; other site 1130804005152 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1130804005153 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1130804005154 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1130804005155 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1130804005156 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1130804005157 Predicted membrane protein [Function unknown]; Region: COG4129 1130804005158 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1130804005159 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 1130804005160 MarR family; Region: MarR_2; pfam12802 1130804005161 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 1130804005162 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1130804005163 catalytic residues [active] 1130804005164 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1130804005165 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 1130804005166 amphipathic channel; other site 1130804005167 Asn-Pro-Ala signature motifs; other site 1130804005168 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 1130804005169 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 1130804005170 oligoendopeptidase F; Region: pepF; TIGR00181 1130804005171 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1130804005172 Zn binding site [ion binding]; other site 1130804005173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1130804005174 RNA methyltransferase, RsmE family; Region: TIGR00046 1130804005175 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1130804005176 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 1130804005177 S-adenosylmethionine binding site [chemical binding]; other site 1130804005178 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 1130804005179 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 1130804005180 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1130804005181 active site 1130804005182 catalytic triad [active] 1130804005183 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1130804005184 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 1130804005185 Walker A motif; other site 1130804005186 ATP binding site [chemical binding]; other site 1130804005187 Walker B motif; other site 1130804005188 arginine finger; other site 1130804005189 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 1130804005190 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 1130804005191 Peptidase family M50; Region: Peptidase_M50; pfam02163 1130804005192 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 1130804005193 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1130804005194 YcfA-like protein; Region: YcfA; pfam07927 1130804005195 recombination factor protein RarA; Reviewed; Region: PRK13342 1130804005196 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 1130804005197 Walker A motif; other site 1130804005198 ATP binding site [chemical binding]; other site 1130804005199 Walker B motif; other site 1130804005200 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 1130804005201 arginine finger; other site 1130804005202 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1130804005203 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1130804005204 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1130804005205 substrate binding [chemical binding]; other site 1130804005206 active site 1130804005207 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1130804005208 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1130804005209 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1130804005210 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 1130804005211 dimer interface [polypeptide binding]; other site 1130804005212 conserved gate region; other site 1130804005213 ABC-ATPase subunit interface; other site 1130804005214 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1130804005215 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 1130804005216 dimer interface [polypeptide binding]; other site 1130804005217 conserved gate region; other site 1130804005218 ABC-ATPase subunit interface; other site 1130804005219 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1130804005220 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1130804005221 DNA binding site [nucleotide binding] 1130804005222 domain linker motif; other site 1130804005223 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 1130804005224 dimerization interface [polypeptide binding]; other site 1130804005225 ligand binding site [chemical binding]; other site 1130804005226 sodium binding site [ion binding]; other site 1130804005227 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 1130804005228 Mga helix-turn-helix domain; Region: Mga; pfam05043 1130804005229 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 1130804005230 Predicted membrane protein [Function unknown]; Region: COG2261 1130804005231 Small integral membrane protein [Function unknown]; Region: COG5547 1130804005232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1130804005233 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1130804005234 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1130804005235 Coenzyme A binding pocket [chemical binding]; other site 1130804005236 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 1130804005237 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1130804005238 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1130804005239 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1130804005240 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 1130804005241 non-specific DNA binding site [nucleotide binding]; other site 1130804005242 salt bridge; other site 1130804005243 sequence-specific DNA binding site [nucleotide binding]; other site 1130804005244 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 1130804005245 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 1130804005246 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1130804005247 substrate binding site [chemical binding]; other site 1130804005248 active site 1130804005249 catalytic residues [active] 1130804005250 heterodimer interface [polypeptide binding]; other site 1130804005251 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1130804005252 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 1130804005253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804005254 catalytic residue [active] 1130804005255 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 1130804005256 active site 1130804005257 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 1130804005258 active site 1130804005259 ribulose/triose binding site [chemical binding]; other site 1130804005260 phosphate binding site [ion binding]; other site 1130804005261 substrate (anthranilate) binding pocket [chemical binding]; other site 1130804005262 product (indole) binding pocket [chemical binding]; other site 1130804005263 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1130804005264 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1130804005265 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1130804005266 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1130804005267 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1130804005268 glutamine binding [chemical binding]; other site 1130804005269 catalytic triad [active] 1130804005270 anthranilate synthase component I; Provisional; Region: PRK13570 1130804005271 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1130804005272 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1130804005273 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1130804005274 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1130804005275 DNA binding site [nucleotide binding] 1130804005276 domain linker motif; other site 1130804005277 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 1130804005278 putative dimerization interface [polypeptide binding]; other site 1130804005279 putative ligand binding site [chemical binding]; other site 1130804005280 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1130804005281 MgtC family; Region: MgtC; pfam02308 1130804005282 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 1130804005283 dimer interface [polypeptide binding]; other site 1130804005284 conserved gate region; other site 1130804005285 putative PBP binding loops; other site 1130804005286 ABC-ATPase subunit interface; other site 1130804005287 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1130804005288 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 1130804005289 putative PBP binding loops; other site 1130804005290 dimer interface [polypeptide binding]; other site 1130804005291 ABC-ATPase subunit interface; other site 1130804005292 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1130804005293 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804005294 Walker A/P-loop; other site 1130804005295 ATP binding site [chemical binding]; other site 1130804005296 Q-loop/lid; other site 1130804005297 ABC transporter signature motif; other site 1130804005298 Walker B; other site 1130804005299 D-loop; other site 1130804005300 H-loop/switch region; other site 1130804005301 TOBE domain; Region: TOBE_2; pfam08402 1130804005302 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1130804005303 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1130804005304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 1130804005305 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 1130804005306 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1130804005307 UDP-glucose 4-epimerase; Region: PLN02240 1130804005308 NAD binding site [chemical binding]; other site 1130804005309 homodimer interface [polypeptide binding]; other site 1130804005310 active site 1130804005311 substrate binding site [chemical binding]; other site 1130804005312 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1130804005313 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1130804005314 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1130804005315 Phosphate uptake regulator [Inorganic ion transport and metabolism]; Region: PhoU; COG0704 1130804005316 PhoU domain; Region: PhoU; pfam01895 1130804005317 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1130804005318 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1130804005319 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1130804005320 Pectate lyase; Region: Pec_lyase_C; cl01593 1130804005321 Right handed beta helix region; Region: Beta_helix; pfam13229 1130804005322 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1130804005323 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 1130804005324 inhibitor-cofactor binding pocket; inhibition site 1130804005325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804005326 catalytic residue [active] 1130804005327 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1130804005328 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1130804005329 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1130804005330 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1130804005331 Walker A/P-loop; other site 1130804005332 ATP binding site [chemical binding]; other site 1130804005333 Q-loop/lid; other site 1130804005334 ABC transporter signature motif; other site 1130804005335 Walker B; other site 1130804005336 D-loop; other site 1130804005337 H-loop/switch region; other site 1130804005338 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1130804005339 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1130804005340 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804005341 Walker A/P-loop; other site 1130804005342 ATP binding site [chemical binding]; other site 1130804005343 Q-loop/lid; other site 1130804005344 ABC transporter signature motif; other site 1130804005345 Walker B; other site 1130804005346 D-loop; other site 1130804005347 H-loop/switch region; other site 1130804005348 Predicted membrane protein [Function unknown]; Region: COG2323 1130804005349 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 1130804005350 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1130804005351 active site 1130804005352 putative catalytic site [active] 1130804005353 DNA binding site [nucleotide binding] 1130804005354 putative phosphate binding site [ion binding]; other site 1130804005355 metal binding site A [ion binding]; metal-binding site 1130804005356 AP binding site [nucleotide binding]; other site 1130804005357 metal binding site B [ion binding]; metal-binding site 1130804005358 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 1130804005359 dimer interface [polypeptide binding]; other site 1130804005360 ligand binding site [chemical binding]; other site 1130804005361 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 1130804005362 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1130804005363 active site 1130804005364 xanthine permease; Region: pbuX; TIGR03173 1130804005365 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1130804005366 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 1130804005367 Dam-replacing family; Region: DRP; pfam06044 1130804005368 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 1130804005369 CoenzymeA binding site [chemical binding]; other site 1130804005370 subunit interaction site [polypeptide binding]; other site 1130804005371 PHB binding site; other site 1130804005372 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1130804005373 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1130804005374 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1130804005375 galactokinase; Provisional; Region: PRK05322 1130804005376 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1130804005377 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1130804005378 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1130804005379 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 1130804005380 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1130804005381 DNA binding site [nucleotide binding] 1130804005382 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 1130804005383 putative dimerization interface [polypeptide binding]; other site 1130804005384 putative ligand binding site [chemical binding]; other site 1130804005385 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 1130804005386 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1130804005387 catalytic Zn binding site [ion binding]; other site 1130804005388 NAD(P) binding site [chemical binding]; other site 1130804005389 structural Zn binding site [ion binding]; other site 1130804005390 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1130804005391 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1130804005392 DNA binding residues [nucleotide binding] 1130804005393 putative dimer interface [polypeptide binding]; other site 1130804005394 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1130804005395 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1130804005396 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1130804005397 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 1130804005398 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 1130804005399 dimer interface [polypeptide binding]; other site 1130804005400 conserved gate region; other site 1130804005401 ABC-ATPase subunit interface; other site 1130804005402 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1130804005403 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1130804005404 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1130804005405 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804005406 Walker A/P-loop; other site 1130804005407 ATP binding site [chemical binding]; other site 1130804005408 Q-loop/lid; other site 1130804005409 ABC transporter signature motif; other site 1130804005410 Walker B; other site 1130804005411 D-loop; other site 1130804005412 H-loop/switch region; other site 1130804005413 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 1130804005414 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 1130804005415 MarR family; Region: MarR_2; cl17246 1130804005416 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1130804005417 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1130804005418 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 1130804005419 oligomer interface [polypeptide binding]; other site 1130804005420 active site 1130804005421 metal binding site [ion binding]; metal-binding site 1130804005422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1130804005423 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1130804005424 NAD(P) binding site [chemical binding]; other site 1130804005425 active site 1130804005426 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1130804005427 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 1130804005428 ABC-ATPase subunit interface; other site 1130804005429 dimer interface [polypeptide binding]; other site 1130804005430 putative PBP binding regions; other site 1130804005431 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 1130804005432 ABC-ATPase subunit interface; other site 1130804005433 dimer interface [polypeptide binding]; other site 1130804005434 putative PBP binding regions; other site 1130804005435 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1130804005436 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1130804005437 Walker A/P-loop; other site 1130804005438 ATP binding site [chemical binding]; other site 1130804005439 Q-loop/lid; other site 1130804005440 ABC transporter signature motif; other site 1130804005441 Walker B; other site 1130804005442 D-loop; other site 1130804005443 H-loop/switch region; other site 1130804005444 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1130804005445 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 1130804005446 putative ligand binding residues [chemical binding]; other site 1130804005447 hypothetical protein; Validated; Region: PRK00041 1130804005448 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1130804005449 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 1130804005450 RNA binding surface [nucleotide binding]; other site 1130804005451 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1130804005452 active site 1130804005453 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1130804005454 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1130804005455 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 1130804005456 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 1130804005457 DNA binding site [nucleotide binding] 1130804005458 Int/Topo IB signature motif; other site 1130804005459 active site 1130804005460 catalytic residues [active] 1130804005461 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 1130804005462 FOG: CBS domain [General function prediction only]; Region: COG0517 1130804005463 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1130804005464 active site 1130804005465 metal binding site [ion binding]; metal-binding site 1130804005466 homotetramer interface [polypeptide binding]; other site 1130804005467 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 1130804005468 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 1130804005469 active site 1130804005470 dimerization interface [polypeptide binding]; other site 1130804005471 glutamate racemase; Provisional; Region: PRK00865 1130804005472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 1130804005473 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1130804005474 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 1130804005475 Ca binding site [ion binding]; other site 1130804005476 active site 1130804005477 catalytic site [active] 1130804005478 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 1130804005479 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 1130804005480 active site turn [active] 1130804005481 phosphorylation site [posttranslational modification] 1130804005482 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1130804005483 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1130804005484 HPr interaction site; other site 1130804005485 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1130804005486 active site 1130804005487 phosphorylation site [posttranslational modification] 1130804005488 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1130804005489 DNA-binding site [nucleotide binding]; DNA binding site 1130804005490 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 1130804005491 UTRA domain; Region: UTRA; pfam07702 1130804005492 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1130804005493 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804005494 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804005495 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804005496 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804005497 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804005498 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1130804005499 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1130804005500 Walker A/P-loop; other site 1130804005501 ATP binding site [chemical binding]; other site 1130804005502 Q-loop/lid; other site 1130804005503 ABC transporter signature motif; other site 1130804005504 Walker B; other site 1130804005505 D-loop; other site 1130804005506 H-loop/switch region; other site 1130804005507 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1130804005508 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1130804005509 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1130804005510 Walker A/P-loop; other site 1130804005511 ATP binding site [chemical binding]; other site 1130804005512 Q-loop/lid; other site 1130804005513 ABC transporter signature motif; other site 1130804005514 Walker B; other site 1130804005515 D-loop; other site 1130804005516 H-loop/switch region; other site 1130804005517 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1130804005518 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1130804005519 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1130804005520 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 1130804005521 dimer interface [polypeptide binding]; other site 1130804005522 conserved gate region; other site 1130804005523 putative PBP binding loops; other site 1130804005524 ABC-ATPase subunit interface; other site 1130804005525 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1130804005526 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 1130804005527 dimer interface [polypeptide binding]; other site 1130804005528 conserved gate region; other site 1130804005529 putative PBP binding loops; other site 1130804005530 ABC-ATPase subunit interface; other site 1130804005531 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1130804005532 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1130804005533 peptide binding site [polypeptide binding]; other site 1130804005534 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1130804005535 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1130804005536 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 1130804005537 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 1130804005538 active site 1130804005539 homodimer interface [polypeptide binding]; other site 1130804005540 catalytic site [active] 1130804005541 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1130804005542 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 1130804005543 dimer interface [polypeptide binding]; other site 1130804005544 conserved gate region; other site 1130804005545 putative PBP binding loops; other site 1130804005546 ABC-ATPase subunit interface; other site 1130804005547 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 1130804005548 dimer interface [polypeptide binding]; other site 1130804005549 conserved gate region; other site 1130804005550 putative PBP binding loops; other site 1130804005551 ABC-ATPase subunit interface; other site 1130804005552 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1130804005553 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1130804005554 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1130804005555 Melibiase; Region: Melibiase; pfam02065 1130804005556 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1130804005557 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1130804005558 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1130804005559 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1130804005560 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1130804005561 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1130804005562 DNA-binding site [nucleotide binding]; DNA binding site 1130804005563 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1130804005564 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1130804005565 TRAM domain; Region: TRAM; pfam01938 1130804005566 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1130804005567 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 1130804005568 S-adenosylmethionine binding site [chemical binding]; other site 1130804005569 recombination regulator RecX; Provisional; Region: recX; PRK14135 1130804005570 hypothetical protein; Provisional; Region: PRK13662 1130804005571 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1130804005572 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 1130804005573 non-specific DNA binding site [nucleotide binding]; other site 1130804005574 salt bridge; other site 1130804005575 sequence-specific DNA binding site [nucleotide binding]; other site 1130804005576 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1130804005577 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 1130804005578 S-adenosylmethionine binding site [chemical binding]; other site 1130804005579 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 1130804005580 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 1130804005581 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1130804005582 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 1130804005583 ring oligomerisation interface [polypeptide binding]; other site 1130804005584 ATP/Mg binding site [chemical binding]; other site 1130804005585 stacking interactions; other site 1130804005586 hinge regions; other site 1130804005587 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 1130804005588 oligomerisation interface [polypeptide binding]; other site 1130804005589 mobile loop; other site 1130804005590 roof hairpin; other site 1130804005591 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1130804005592 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 1130804005593 dimer interface [polypeptide binding]; other site 1130804005594 ssDNA binding site [nucleotide binding]; other site 1130804005595 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1130804005596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1130804005597 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1130804005598 NAD(P) binding site [chemical binding]; other site 1130804005599 active site 1130804005600 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 1130804005601 putative tRNA-binding site [nucleotide binding]; other site 1130804005602 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 1130804005603 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1130804005604 catalytic residues [active] 1130804005605 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804005606 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1130804005607 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1130804005608 LytTr DNA-binding domain; Region: LytTR; pfam04397 1130804005609 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 1130804005610 active site 1130804005611 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1130804005612 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 1130804005613 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804005614 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1130804005615 Walker A/P-loop; other site 1130804005616 ATP binding site [chemical binding]; other site 1130804005617 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1130804005618 Walker A/P-loop; other site 1130804005619 ATP binding site [chemical binding]; other site 1130804005620 Q-loop/lid; other site 1130804005621 ABC transporter signature motif; other site 1130804005622 Walker B; other site 1130804005623 D-loop; other site 1130804005624 H-loop/switch region; other site 1130804005625 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1130804005626 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1130804005627 MarR family; Region: MarR_2; pfam12802 1130804005628 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1130804005629 hypothetical protein; Provisional; Region: PRK12378 1130804005630 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 1130804005631 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 1130804005632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1130804005633 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 1130804005634 putative active site [active] 1130804005635 putative metal binding site [ion binding]; other site 1130804005636 oligomer interface [polypeptide binding]; other site 1130804005637 catalytic site [active] 1130804005638 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1130804005639 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1130804005640 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1130804005641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804005642 Walker A/P-loop; other site 1130804005643 ATP binding site [chemical binding]; other site 1130804005644 Q-loop/lid; other site 1130804005645 ABC transporter signature motif; other site 1130804005646 Walker B; other site 1130804005647 D-loop; other site 1130804005648 H-loop/switch region; other site 1130804005649 TOBE domain; Region: TOBE_2; pfam08402 1130804005650 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1130804005651 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 1130804005652 dimer interface [polypeptide binding]; other site 1130804005653 conserved gate region; other site 1130804005654 putative PBP binding loops; other site 1130804005655 ABC-ATPase subunit interface; other site 1130804005656 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 1130804005657 dimer interface [polypeptide binding]; other site 1130804005658 conserved gate region; other site 1130804005659 putative PBP binding loops; other site 1130804005660 ABC-ATPase subunit interface; other site 1130804005661 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1130804005662 MgtC family; Region: MgtC; pfam02308 1130804005663 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1130804005664 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 1130804005665 motif II; other site 1130804005666 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1130804005667 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1130804005668 DNA binding site [nucleotide binding] 1130804005669 domain linker motif; other site 1130804005670 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1130804005671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1130804005672 Domain of unknown function (DUF955); Region: DUF955; cl01076 1130804005673 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1130804005674 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 1130804005675 non-specific DNA binding site [nucleotide binding]; other site 1130804005676 salt bridge; other site 1130804005677 sequence-specific DNA binding site [nucleotide binding]; other site 1130804005678 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804005679 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 1130804005680 amidase catalytic site [active] 1130804005681 Zn binding residues [ion binding]; other site 1130804005682 substrate binding site [chemical binding]; other site 1130804005683 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804005684 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804005685 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1130804005686 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1130804005687 recombinase A; Provisional; Region: recA; PRK09354 1130804005688 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 1130804005689 hexamer interface [polypeptide binding]; other site 1130804005690 Walker A motif; other site 1130804005691 ATP binding site [chemical binding]; other site 1130804005692 Walker B motif; other site 1130804005693 competence damage-inducible protein A; Provisional; Region: PRK00549 1130804005694 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 1130804005695 putative MPT binding site; other site 1130804005696 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1130804005697 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1130804005698 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1130804005699 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1130804005700 Coenzyme A binding pocket [chemical binding]; other site 1130804005701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1130804005702 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1130804005703 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1130804005704 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 1130804005705 non-specific DNA binding site [nucleotide binding]; other site 1130804005706 salt bridge; other site 1130804005707 sequence-specific DNA binding site [nucleotide binding]; other site 1130804005708 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 1130804005709 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 1130804005710 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1130804005711 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 1130804005712 Walker A motif; other site 1130804005713 ATP binding site [chemical binding]; other site 1130804005714 Walker B motif; other site 1130804005715 arginine finger; other site 1130804005716 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 1130804005717 non-specific DNA binding site [nucleotide binding]; other site 1130804005718 salt bridge; other site 1130804005719 sequence-specific DNA binding site [nucleotide binding]; other site 1130804005720 Replication initiation factor; Region: Rep_trans; pfam02486 1130804005721 Antirestriction protein (ArdA); Region: ArdA; pfam07275 1130804005722 TcpE family; Region: TcpE; pfam12648 1130804005723 AAA-like domain; Region: AAA_10; pfam12846 1130804005724 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 1130804005725 Haemolysin-III related; Region: HlyIII; cl03831 1130804005726 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1130804005727 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1130804005728 catalytic residue [active] 1130804005729 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1130804005730 NlpC/P60 family; Region: NLPC_P60; pfam00877 1130804005731 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 1130804005732 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 1130804005733 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 1130804005734 G1 box; other site 1130804005735 putative GEF interaction site [polypeptide binding]; other site 1130804005736 GTP/Mg2+ binding site [chemical binding]; other site 1130804005737 Switch I region; other site 1130804005738 G2 box; other site 1130804005739 G3 box; other site 1130804005740 Switch II region; other site 1130804005741 G4 box; other site 1130804005742 G5 box; other site 1130804005743 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 1130804005744 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 1130804005745 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 1130804005746 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1130804005747 impB/mucB/samB family C-terminal; Region: IMS_C; pfam11799 1130804005748 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1130804005749 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804005750 ABC transporter; Region: ABC_tran_2; pfam12848 1130804005751 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804005752 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 1130804005753 H+ Antiporter protein; Region: 2A0121; TIGR00900 1130804005754 putative substrate translocation pore; other site 1130804005755 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 1130804005756 non-specific DNA binding site [nucleotide binding]; other site 1130804005757 salt bridge; other site 1130804005758 sequence-specific DNA binding site [nucleotide binding]; other site 1130804005759 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1130804005760 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 1130804005761 DNA binding residues [nucleotide binding] 1130804005762 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 1130804005763 DNA binding domain of tn916 integrase; Region: Integrase_DNA; pfam02920 1130804005764 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 1130804005765 Int/Topo IB signature motif; other site 1130804005766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 1130804005767 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 1130804005768 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1130804005769 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1130804005770 Walker A/P-loop; other site 1130804005771 ATP binding site [chemical binding]; other site 1130804005772 Q-loop/lid; other site 1130804005773 ABC transporter signature motif; other site 1130804005774 Walker B; other site 1130804005775 D-loop; other site 1130804005776 H-loop/switch region; other site 1130804005777 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 1130804005778 active site 1130804005779 multimer interface [polypeptide binding]; other site 1130804005780 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1130804005781 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1130804005782 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1130804005783 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1130804005784 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1130804005785 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1130804005786 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1130804005787 G-loop; other site 1130804005788 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1130804005789 DNA binding site [nucleotide binding] 1130804005790 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1130804005791 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1130804005792 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 1130804005793 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1130804005794 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 1130804005795 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 1130804005796 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 1130804005797 RPB1 interaction site [polypeptide binding]; other site 1130804005798 RPB10 interaction site [polypeptide binding]; other site 1130804005799 RPB11 interaction site [polypeptide binding]; other site 1130804005800 RPB3 interaction site [polypeptide binding]; other site 1130804005801 RPB12 interaction site [polypeptide binding]; other site 1130804005802 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1130804005803 Domain of unknown function DUF21; Region: DUF21; pfam01595 1130804005804 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 1130804005805 Transporter associated domain; Region: CorC_HlyC; smart01091 1130804005806 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1130804005807 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 1130804005808 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 1130804005809 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1130804005810 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 1130804005811 hinge; other site 1130804005812 active site 1130804005813 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1130804005814 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 1130804005815 protein binding site [polypeptide binding]; other site 1130804005816 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 1130804005817 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1130804005818 active site 1130804005819 (T/H)XGH motif; other site 1130804005820 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1130804005821 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 1130804005822 S-adenosylmethionine binding site [chemical binding]; other site 1130804005823 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 1130804005824 dimer interface [polypeptide binding]; other site 1130804005825 active site 1130804005826 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1130804005827 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1130804005828 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1130804005829 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1130804005830 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1130804005831 acylphosphatase; Provisional; Region: PRK14434 1130804005832 OxaA-like protein precursor; Provisional; Region: PRK02463 1130804005833 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1130804005834 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1130804005835 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 1130804005836 FeS/SAM binding site; other site 1130804005837 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1130804005838 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1130804005839 active site 1130804005840 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1130804005841 substrate binding site [chemical binding]; other site 1130804005842 catalytic residues [active] 1130804005843 dimer interface [polypeptide binding]; other site 1130804005844 pur operon repressor; Provisional; Region: PRK09213 1130804005845 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1130804005846 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1130804005847 active site 1130804005848 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 1130804005849 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 1130804005850 generic binding surface II; other site 1130804005851 generic binding surface I; other site 1130804005852 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1130804005853 Zn2+ binding site [ion binding]; other site 1130804005854 Mg2+ binding site [ion binding]; other site 1130804005855 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1130804005856 RmuC family; Region: RmuC; pfam02646 1130804005857 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1130804005858 Thiamine pyrophosphokinase; Region: TPK; cd07995 1130804005859 active site 1130804005860 dimerization interface [polypeptide binding]; other site 1130804005861 thiamine binding site [chemical binding]; other site 1130804005862 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1130804005863 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 1130804005864 substrate binding site [chemical binding]; other site 1130804005865 hexamer interface [polypeptide binding]; other site 1130804005866 metal binding site [ion binding]; metal-binding site 1130804005867 GTPase RsgA; Reviewed; Region: PRK00098 1130804005868 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 1130804005869 RNA binding site [nucleotide binding]; other site 1130804005870 homodimer interface [polypeptide binding]; other site 1130804005871 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1130804005872 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1130804005873 GTP/Mg2+ binding site [chemical binding]; other site 1130804005874 G4 box; other site 1130804005875 G5 box; other site 1130804005876 G1 box; other site 1130804005877 Switch I region; other site 1130804005878 G2 box; other site 1130804005879 G3 box; other site 1130804005880 Switch II region; other site 1130804005881 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1130804005882 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 1130804005883 S-adenosylmethionine binding site [chemical binding]; other site 1130804005884 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1130804005885 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1130804005886 Walker A/P-loop; other site 1130804005887 ATP binding site [chemical binding]; other site 1130804005888 Q-loop/lid; other site 1130804005889 ABC transporter signature motif; other site 1130804005890 Walker B; other site 1130804005891 D-loop; other site 1130804005892 H-loop/switch region; other site 1130804005893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 1130804005894 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 1130804005895 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1130804005896 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 1130804005897 non-specific DNA binding site [nucleotide binding]; other site 1130804005898 salt bridge; other site 1130804005899 sequence-specific DNA binding site [nucleotide binding]; other site 1130804005900 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1130804005901 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 1130804005902 putative active site [active] 1130804005903 putative metal binding site [ion binding]; other site 1130804005904 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1130804005905 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1130804005906 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1130804005907 active site 1130804005908 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 1130804005909 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 1130804005910 aminotransferase AlaT; Validated; Region: PRK09265 1130804005911 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 1130804005912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804005913 homodimer interface [polypeptide binding]; other site 1130804005914 catalytic residue [active] 1130804005915 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 1130804005916 Ligand Binding Site [chemical binding]; other site 1130804005917 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 1130804005918 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1130804005919 active site 1130804005920 motif I; other site 1130804005921 motif II; other site 1130804005922 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 1130804005923 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 1130804005924 putative nucleotide binding site [chemical binding]; other site 1130804005925 putative metal binding site [ion binding]; other site 1130804005926 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1130804005927 active site 1130804005928 homotetramer interface [polypeptide binding]; other site 1130804005929 homodimer interface [polypeptide binding]; other site 1130804005930 catabolite control protein A; Region: ccpA; TIGR01481 1130804005931 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1130804005932 DNA binding site [nucleotide binding] 1130804005933 domain linker motif; other site 1130804005934 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 1130804005935 dimerization interface [polypeptide binding]; other site 1130804005936 effector binding site; other site 1130804005937 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1130804005938 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 1130804005939 active site 1130804005940 phosphorylation site [posttranslational modification] 1130804005941 intermolecular recognition site; other site 1130804005942 dimerization interface [polypeptide binding]; other site 1130804005943 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 1130804005944 DNA binding residues [nucleotide binding] 1130804005945 dimerization interface [polypeptide binding]; other site 1130804005946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1130804005947 Histidine kinase; Region: HisKA_3; pfam07730 1130804005948 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 1130804005949 Mg2+ binding site [ion binding]; other site 1130804005950 G-X-G motif; other site 1130804005951 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1130804005952 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1130804005953 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1130804005954 Walker A/P-loop; other site 1130804005955 ATP binding site [chemical binding]; other site 1130804005956 Q-loop/lid; other site 1130804005957 ABC transporter signature motif; other site 1130804005958 Walker B; other site 1130804005959 D-loop; other site 1130804005960 H-loop/switch region; other site 1130804005961 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1130804005962 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1130804005963 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1130804005964 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1130804005965 putative homodimer interface [polypeptide binding]; other site 1130804005966 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1130804005967 heterodimer interface [polypeptide binding]; other site 1130804005968 homodimer interface [polypeptide binding]; other site 1130804005969 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 1130804005970 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1130804005971 Transglycosylase; Region: Transgly; pfam00912 1130804005972 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1130804005973 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1130804005974 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1130804005975 active site 1130804005976 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1130804005977 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1130804005978 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1130804005979 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1130804005980 FtsX-like permease family; Region: FtsX; pfam02687 1130804005981 Helix-turn-helix domain; Region: HTH_28; pfam13518 1130804005982 Winged helix-turn helix; Region: HTH_29; pfam13551 1130804005983 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 1130804005984 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 1130804005985 dimerization interface [polypeptide binding]; other site 1130804005986 active site 1130804005987 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1130804005988 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1130804005989 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1130804005990 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1130804005991 Walker A/P-loop; other site 1130804005992 ATP binding site [chemical binding]; other site 1130804005993 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1130804005994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1130804005995 DNA-binding site [nucleotide binding]; DNA binding site 1130804005996 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1130804005997 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1130804005998 beta-galactosidase; Region: BGL; TIGR03356 1130804005999 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1130804006000 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1130804006001 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 1130804006002 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 1130804006003 methionine cluster; other site 1130804006004 active site 1130804006005 phosphorylation site [posttranslational modification] 1130804006006 metal binding site [ion binding]; metal-binding site 1130804006007 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1130804006008 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1130804006009 putative catalytic cysteine [active] 1130804006010 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1130804006011 putative active site [active] 1130804006012 metal binding site [ion binding]; metal-binding site 1130804006013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1130804006014 MORN repeat; Region: MORN; cl14787 1130804006015 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1130804006016 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1130804006017 active site 1130804006018 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 1130804006019 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1130804006020 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 1130804006021 TPP-binding site [chemical binding]; other site 1130804006022 dimer interface [polypeptide binding]; other site 1130804006023 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 1130804006024 PYR/PP interface [polypeptide binding]; other site 1130804006025 dimer interface [polypeptide binding]; other site 1130804006026 TPP binding site [chemical binding]; other site 1130804006027 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1130804006028 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1130804006029 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1130804006030 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1130804006031 PRD domain; Region: PRD; pfam00874 1130804006032 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 1130804006033 active site 1130804006034 P-loop; other site 1130804006035 phosphorylation site [posttranslational modification] 1130804006036 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1130804006037 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 1130804006038 intersubunit interface [polypeptide binding]; other site 1130804006039 active site 1130804006040 Zn2+ binding site [ion binding]; other site 1130804006041 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1130804006042 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 1130804006043 AP (apurinic/apyrimidinic) site pocket; other site 1130804006044 DNA interaction; other site 1130804006045 Metal-binding active site; metal-binding site 1130804006046 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 1130804006047 active site 1130804006048 dimer interface [polypeptide binding]; other site 1130804006049 magnesium binding site [ion binding]; other site 1130804006050 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 1130804006051 active site 1130804006052 phosphorylation site [posttranslational modification] 1130804006053 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 1130804006054 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 1130804006055 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1130804006056 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 1130804006057 G-X-X-G motif; other site 1130804006058 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 1130804006059 RxxxH motif; other site 1130804006060 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1130804006061 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1130804006062 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1130804006063 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1130804006064 propionate/acetate kinase; Provisional; Region: PRK12379 1130804006065 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1130804006066 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 1130804006067 S-adenosylmethionine binding site [chemical binding]; other site 1130804006068 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 1130804006069 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1130804006070 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1130804006071 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 1130804006072 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1130804006073 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1130804006074 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1130804006075 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1130804006076 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1130804006077 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 1130804006078 Walker A motif; other site 1130804006079 ATP binding site [chemical binding]; other site 1130804006080 Walker B motif; other site 1130804006081 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 1130804006082 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 1130804006083 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1130804006084 catalytic Zn binding site [ion binding]; other site 1130804006085 structural Zn binding site [ion binding]; other site 1130804006086 NAD(P) binding site [chemical binding]; other site 1130804006087 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1130804006088 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 1130804006089 active site 1130804006090 dimer interface [polypeptide binding]; other site 1130804006091 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1130804006092 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 1130804006093 catalytic triad [active] 1130804006094 catalytic triad [active] 1130804006095 oxyanion hole [active] 1130804006096 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1130804006097 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1130804006098 Predicted integral membrane protein [Function unknown]; Region: COG5523 1130804006099 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 1130804006100 putative substrate binding pocket [chemical binding]; other site 1130804006101 AC domain interface; other site 1130804006102 catalytic triad [active] 1130804006103 AB domain interface; other site 1130804006104 interchain disulfide; other site 1130804006105 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 1130804006106 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1130804006107 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 1130804006108 putative DNA binding site [nucleotide binding]; other site 1130804006109 putative Zn2+ binding site [ion binding]; other site 1130804006110 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1130804006111 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1130804006112 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 1130804006113 motif II; other site 1130804006114 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1130804006115 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1130804006116 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 1130804006117 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1130804006118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804006119 catalytic residue [active] 1130804006120 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 1130804006121 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 1130804006122 active site 1130804006123 catalytic motif [active] 1130804006124 Zn binding site [ion binding]; other site 1130804006125 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1130804006126 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1130804006127 active site 1130804006128 HIGH motif; other site 1130804006129 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1130804006130 active site 1130804006131 KMSKS motif; other site 1130804006132 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 1130804006133 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1130804006134 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 1130804006135 active site 1130804006136 dimer interface [polypeptide binding]; other site 1130804006137 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 1130804006138 dimer interface [polypeptide binding]; other site 1130804006139 active site 1130804006140 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1130804006141 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1130804006142 catalytic triad [active] 1130804006143 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1130804006144 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1130804006145 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804006146 Walker A/P-loop; other site 1130804006147 ATP binding site [chemical binding]; other site 1130804006148 Q-loop/lid; other site 1130804006149 ABC transporter signature motif; other site 1130804006150 Walker B; other site 1130804006151 D-loop; other site 1130804006152 H-loop/switch region; other site 1130804006153 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1130804006154 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1130804006155 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1130804006156 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804006157 Walker A/P-loop; other site 1130804006158 ATP binding site [chemical binding]; other site 1130804006159 Q-loop/lid; other site 1130804006160 ABC transporter signature motif; other site 1130804006161 Walker B; other site 1130804006162 D-loop; other site 1130804006163 H-loop/switch region; other site 1130804006164 DNA mismatch repair protein MutS; Region: mutS1; TIGR01070 1130804006165 MutS domain I; Region: MutS_I; pfam01624 1130804006166 MutS domain II; Region: MutS_II; pfam05188 1130804006167 MutS domain III; Region: MutS_III; pfam05192 1130804006168 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1130804006169 Walker A/P-loop; other site 1130804006170 ATP binding site [chemical binding]; other site 1130804006171 Q-loop/lid; other site 1130804006172 ABC transporter signature motif; other site 1130804006173 Walker B; other site 1130804006174 D-loop; other site 1130804006175 H-loop/switch region; other site 1130804006176 arginine repressor; Region: argR_whole; TIGR01529 1130804006177 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1130804006178 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1130804006179 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1130804006180 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1130804006181 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1130804006182 active site 1130804006183 HIGH motif; other site 1130804006184 KMSK motif region; other site 1130804006185 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1130804006186 tRNA binding surface [nucleotide binding]; other site 1130804006187 anticodon binding site; other site 1130804006188 Uncharacterized conserved protein [Function unknown]; Region: COG3542 1130804006189 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1130804006190 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 1130804006191 active site 1130804006192 phosphorylation site [posttranslational modification] 1130804006193 intermolecular recognition site; other site 1130804006194 dimerization interface [polypeptide binding]; other site 1130804006195 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 1130804006196 DNA binding site [nucleotide binding] 1130804006197 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1130804006198 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 1130804006199 dimer interface [polypeptide binding]; other site 1130804006200 phosphorylation site [posttranslational modification] 1130804006201 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 1130804006202 ATP binding site [chemical binding]; other site 1130804006203 G-X-G motif; other site 1130804006204 PBP superfamily domain; Region: PBP_like_2; cl17296 1130804006205 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1130804006206 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1130804006207 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 1130804006208 dimer interface [polypeptide binding]; other site 1130804006209 conserved gate region; other site 1130804006210 putative PBP binding loops; other site 1130804006211 ABC-ATPase subunit interface; other site 1130804006212 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1130804006213 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 1130804006214 dimer interface [polypeptide binding]; other site 1130804006215 conserved gate region; other site 1130804006216 putative PBP binding loops; other site 1130804006217 ABC-ATPase subunit interface; other site 1130804006218 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 1130804006219 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1130804006220 Walker A/P-loop; other site 1130804006221 ATP binding site [chemical binding]; other site 1130804006222 Q-loop/lid; other site 1130804006223 ABC transporter signature motif; other site 1130804006224 Walker B; other site 1130804006225 D-loop; other site 1130804006226 H-loop/switch region; other site 1130804006227 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1130804006228 PhoU domain; Region: PhoU; pfam01895 1130804006229 PhoU domain; Region: PhoU; pfam01895 1130804006230 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1130804006231 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 1130804006232 non-specific DNA binding site [nucleotide binding]; other site 1130804006233 salt bridge; other site 1130804006234 sequence-specific DNA binding site [nucleotide binding]; other site 1130804006235 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1130804006236 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1130804006237 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1130804006238 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1130804006239 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1130804006240 active site 1130804006241 tetramer interface; other site 1130804006242 Rhomboid family; Region: Rhomboid; pfam01694 1130804006243 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1130804006244 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1130804006245 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1130804006246 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 1130804006247 metal binding site [ion binding]; metal-binding site 1130804006248 putative dimer interface [polypeptide binding]; other site 1130804006249 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1130804006250 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1130804006251 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 1130804006252 trimer interface [polypeptide binding]; other site 1130804006253 active site 1130804006254 substrate binding site [chemical binding]; other site 1130804006255 CoA binding site [chemical binding]; other site 1130804006256 EamA-like transporter family; Region: EamA; pfam00892 1130804006257 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1130804006258 Transglycosylase; Region: Transgly; pfam00912 1130804006259 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1130804006260 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1130804006261 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1130804006262 active site 1130804006263 HIGH motif; other site 1130804006264 dimer interface [polypeptide binding]; other site 1130804006265 KMSKS motif; other site 1130804006266 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 1130804006267 RNA binding surface [nucleotide binding]; other site 1130804006268 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1130804006269 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1130804006270 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 1130804006271 motif II; other site 1130804006272 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1130804006273 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 1130804006274 S-adenosylmethionine binding site [chemical binding]; other site 1130804006275 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1130804006276 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 1130804006277 4-alpha-glucanotransferase; Provisional; Region: PRK14508 1130804006278 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1130804006279 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1130804006280 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 1130804006281 dimer interface [polypeptide binding]; other site 1130804006282 conserved gate region; other site 1130804006283 putative PBP binding loops; other site 1130804006284 ABC-ATPase subunit interface; other site 1130804006285 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1130804006286 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 1130804006287 dimer interface [polypeptide binding]; other site 1130804006288 conserved gate region; other site 1130804006289 putative PBP binding loops; other site 1130804006290 ABC-ATPase subunit interface; other site 1130804006291 Predicted integral membrane protein [Function unknown]; Region: COG5521 1130804006292 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1130804006293 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1130804006294 DNA binding site [nucleotide binding] 1130804006295 domain linker motif; other site 1130804006296 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 1130804006297 putative dimerization interface [polypeptide binding]; other site 1130804006298 putative ligand binding site [chemical binding]; other site 1130804006299 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1130804006300 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1130804006301 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1130804006302 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1130804006303 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1130804006304 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 1130804006305 dimer interface [polypeptide binding]; other site 1130804006306 anticodon binding site; other site 1130804006307 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 1130804006308 homodimer interface [polypeptide binding]; other site 1130804006309 motif 1; other site 1130804006310 active site 1130804006311 motif 2; other site 1130804006312 GAD domain; Region: GAD; pfam02938 1130804006313 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 1130804006314 motif 3; other site 1130804006315 CAAX protease self-immunity; Region: Abi; pfam02517 1130804006316 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 1130804006317 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 1130804006318 non-specific DNA binding site [nucleotide binding]; other site 1130804006319 salt bridge; other site 1130804006320 sequence-specific DNA binding site [nucleotide binding]; other site 1130804006321 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1130804006322 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 1130804006323 dimer interface [polypeptide binding]; other site 1130804006324 motif 1; other site 1130804006325 active site 1130804006326 motif 2; other site 1130804006327 motif 3; other site 1130804006328 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 1130804006329 anticodon binding site; other site 1130804006330 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1130804006331 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1130804006332 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1130804006333 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1130804006334 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1130804006335 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 1130804006336 PYR/PP interface [polypeptide binding]; other site 1130804006337 dimer interface [polypeptide binding]; other site 1130804006338 TPP binding site [chemical binding]; other site 1130804006339 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1130804006340 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 1130804006341 TPP-binding site [chemical binding]; other site 1130804006342 dimer interface [polypeptide binding]; other site 1130804006343 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1130804006344 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 1130804006345 active site 1130804006346 P-loop; other site 1130804006347 phosphorylation site [posttranslational modification] 1130804006348 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1130804006349 PRD domain; Region: PRD; pfam00874 1130804006350 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 1130804006351 active site 1130804006352 P-loop; other site 1130804006353 phosphorylation site [posttranslational modification] 1130804006354 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 1130804006355 active site 1130804006356 phosphorylation site [posttranslational modification] 1130804006357 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1130804006358 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 1130804006359 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1130804006360 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1130804006361 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1130804006362 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804006363 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804006364 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804006365 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804006366 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804006367 Divergent AAA domain; Region: AAA_4; pfam04326 1130804006368 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1130804006369 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1130804006370 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 1130804006371 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1130804006372 putative active site [active] 1130804006373 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1130804006374 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1130804006375 nucleotide binding site [chemical binding]; other site 1130804006376 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1130804006377 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 1130804006378 active site 1130804006379 metal binding site [ion binding]; metal-binding site 1130804006380 homodimer interface [polypeptide binding]; other site 1130804006381 catalytic site [active] 1130804006382 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1130804006383 Uncharacterized conserved protein [Function unknown]; Region: COG3538 1130804006384 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 1130804006385 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1130804006386 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1130804006387 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1130804006388 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 1130804006389 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 1130804006390 arginine deiminase; Provisional; Region: PRK01388 1130804006391 ornithine carbamoyltransferase; Validated; Region: PRK02102 1130804006392 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1130804006393 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1130804006394 carbamate kinase; Reviewed; Region: PRK12686 1130804006395 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 1130804006396 putative substrate binding site [chemical binding]; other site 1130804006397 nucleotide binding site [chemical binding]; other site 1130804006398 nucleotide binding site [chemical binding]; other site 1130804006399 homodimer interface [polypeptide binding]; other site 1130804006400 Predicted membrane protein [Function unknown]; Region: COG1288 1130804006401 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1130804006402 hypothetical protein; Provisional; Region: PRK07205 1130804006403 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1130804006404 active site 1130804006405 metal binding site [ion binding]; metal-binding site 1130804006406 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 1130804006407 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 1130804006408 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1130804006409 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 1130804006410 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1130804006411 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1130804006412 dimer interface [polypeptide binding]; other site 1130804006413 active site 1130804006414 metal binding site [ion binding]; metal-binding site 1130804006415 L-fucose isomerase; Provisional; Region: fucI; PRK10991 1130804006416 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 1130804006417 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1130804006418 trimer interface [polypeptide binding]; other site 1130804006419 substrate binding site [chemical binding]; other site 1130804006420 Mn binding site [ion binding]; other site 1130804006421 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1130804006422 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1130804006423 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 1130804006424 active site 1130804006425 phosphorylation site [posttranslational modification] 1130804006426 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 1130804006427 active pocket/dimerization site; other site 1130804006428 active site 1130804006429 phosphorylation site [posttranslational modification] 1130804006430 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 1130804006431 L-fuculose phosphate aldolase; Provisional; Region: PRK06833 1130804006432 intersubunit interface [polypeptide binding]; other site 1130804006433 active site 1130804006434 Zn2+ binding site [ion binding]; other site 1130804006435 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 1130804006436 N- and C-terminal domain interface [polypeptide binding]; other site 1130804006437 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 1130804006438 active site 1130804006439 putative catalytic site [active] 1130804006440 metal binding site [ion binding]; metal-binding site 1130804006441 ATP binding site [chemical binding]; other site 1130804006442 carbohydrate binding site [chemical binding]; other site 1130804006443 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1130804006444 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1130804006445 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1130804006446 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1130804006447 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 1130804006448 metal binding site [ion binding]; metal-binding site 1130804006449 YodA lipocalin-like domain; Region: YodA; pfam09223 1130804006450 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1130804006451 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 1130804006452 ABC-ATPase subunit interface; other site 1130804006453 dimer interface [polypeptide binding]; other site 1130804006454 putative PBP binding regions; other site 1130804006455 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1130804006456 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1130804006457 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 1130804006458 putative DNA binding site [nucleotide binding]; other site 1130804006459 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 1130804006460 DltD N-terminal region; Region: DltD_N; pfam04915 1130804006461 DltD central region; Region: DltD_M; pfam04918 1130804006462 DltD C-terminal region; Region: DltD_C; pfam04914 1130804006463 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 1130804006464 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1130804006465 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1130804006466 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1130804006467 acyl-activating enzyme (AAE) consensus motif; other site 1130804006468 AMP binding site [chemical binding]; other site 1130804006469 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 1130804006470 H+ Antiporter protein; Region: 2A0121; TIGR00900 1130804006471 putative substrate translocation pore; other site 1130804006472 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 1130804006473 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1130804006474 putative active site [active] 1130804006475 putative NTP binding site [chemical binding]; other site 1130804006476 putative nucleic acid binding site [nucleotide binding]; other site 1130804006477 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1130804006478 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1130804006479 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 1130804006480 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 1130804006481 amphipathic channel; other site 1130804006482 Asn-Pro-Ala signature motifs; other site 1130804006483 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1130804006484 glycerol kinase; Provisional; Region: glpK; PRK00047 1130804006485 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1130804006486 N- and C-terminal domain interface [polypeptide binding]; other site 1130804006487 active site 1130804006488 MgATP binding site [chemical binding]; other site 1130804006489 catalytic site [active] 1130804006490 metal binding site [ion binding]; metal-binding site 1130804006491 glycerol binding site [chemical binding]; other site 1130804006492 homotetramer interface [polypeptide binding]; other site 1130804006493 homodimer interface [polypeptide binding]; other site 1130804006494 FBP binding site [chemical binding]; other site 1130804006495 protein IIAGlc interface [polypeptide binding]; other site 1130804006496 Mga helix-turn-helix domain; Region: Mga; pfam05043 1130804006497 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1130804006498 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 1130804006499 dimerization interface [polypeptide binding]; other site 1130804006500 domain crossover interface; other site 1130804006501 redox-dependent activation switch; other site 1130804006502 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1130804006503 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 1130804006504 FMN binding site [chemical binding]; other site 1130804006505 active site 1130804006506 catalytic residues [active] 1130804006507 substrate binding site [chemical binding]; other site 1130804006508 RICH domain; Region: RICH; pfam05062 1130804006509 RICH domain; Region: RICH; pfam05062 1130804006510 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1130804006511 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1130804006512 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1130804006513 RICH domain; Region: RICH; pfam05062 1130804006514 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804006515 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804006516 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804006517 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1130804006518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 1130804006519 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1130804006520 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 1130804006521 dimerization interface [polypeptide binding]; other site 1130804006522 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 1130804006523 dimer interface [polypeptide binding]; other site 1130804006524 phosphorylation site [posttranslational modification] 1130804006525 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 1130804006526 ATP binding site [chemical binding]; other site 1130804006527 Mg2+ binding site [ion binding]; other site 1130804006528 G-X-G motif; other site 1130804006529 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1130804006530 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 1130804006531 active site 1130804006532 phosphorylation site [posttranslational modification] 1130804006533 intermolecular recognition site; other site 1130804006534 dimerization interface [polypeptide binding]; other site 1130804006535 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 1130804006536 DNA binding site [nucleotide binding] 1130804006537 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1130804006538 Clp amino terminal domain; Region: Clp_N; pfam02861 1130804006539 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 1130804006540 Walker A motif; other site 1130804006541 ATP binding site [chemical binding]; other site 1130804006542 Walker B motif; other site 1130804006543 arginine finger; other site 1130804006544 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 1130804006545 Walker A motif; other site 1130804006546 ATP binding site [chemical binding]; other site 1130804006547 Walker B motif; other site 1130804006548 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1130804006549 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 1130804006550 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1130804006551 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1130804006552 Walker A/P-loop; other site 1130804006553 ATP binding site [chemical binding]; other site 1130804006554 Q-loop/lid; other site 1130804006555 ABC transporter signature motif; other site 1130804006556 Walker B; other site 1130804006557 D-loop; other site 1130804006558 H-loop/switch region; other site 1130804006559 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 1130804006560 NMT1/THI5 like; Region: NMT1; pfam09084 1130804006561 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1130804006562 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1130804006563 putative PBP binding loops; other site 1130804006564 ABC-ATPase subunit interface; other site 1130804006565 Uncharacterized conserved protein [Function unknown]; Region: COG0011 1130804006566 Surface antigen [General function prediction only]; Region: COG3942 1130804006567 CHAP domain; Region: CHAP; pfam05257 1130804006568 Bacterial SH3 domain; Region: SH3_5; pfam08460 1130804006569 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1130804006570 Bacterial SH3 domain; Region: SH3_5; pfam08460 1130804006571 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1130804006572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 1130804006573 replicative DNA helicase; Provisional; Region: PRK05748 1130804006574 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1130804006575 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 1130804006576 Walker A motif; other site 1130804006577 ATP binding site [chemical binding]; other site 1130804006578 Walker B motif; other site 1130804006579 DNA binding loops [nucleotide binding] 1130804006580 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1130804006581 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1130804006582 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1130804006583 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1130804006584 DHH family; Region: DHH; pfam01368 1130804006585 DHHA1 domain; Region: DHHA1; pfam02272 1130804006586 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 1130804006587 30S subunit binding site; other site 1130804006588 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1130804006589 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1130804006590 active site 1130804006591 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1130804006592 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 1130804006593 ATP binding site [chemical binding]; other site 1130804006594 putative Mg++ binding site [ion binding]; other site 1130804006595 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 1130804006596 nucleotide binding region [chemical binding]; other site 1130804006597 ATP-binding site [chemical binding]; other site 1130804006598 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1130804006599 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1130804006600 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1130804006601 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1130804006602 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 1130804006603 dimer interface [polypeptide binding]; other site 1130804006604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1130804006605 catalytic residue [active] 1130804006606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1130804006607 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1130804006608 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1130804006609 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1130804006610 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1130804006611 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1130804006612 elongation factor Ts; Provisional; Region: tsf; PRK09377 1130804006613 UBA/TS-N domain; Region: UBA; pfam00627 1130804006614 Elongation factor TS; Region: EF_TS; pfam00889 1130804006615 Elongation factor TS; Region: EF_TS; pfam00889 1130804006616 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 1130804006617 rRNA interaction site [nucleotide binding]; other site 1130804006618 S8 interaction site; other site 1130804006619 putative laminin-1 binding site; other site 1130804006620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1130804006621 Septum formation initiator; Region: DivIC; cl17659 1130804006622 Surface antigen [General function prediction only]; Region: COG3942 1130804006623 CHAP domain; Region: CHAP; pfam05257 1130804006624 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 1130804006625 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1130804006626 rod shape-determining protein MreC; Region: MreC; pfam04085 1130804006627 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1130804006628 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 1130804006629 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1130804006630 Walker A/P-loop; other site 1130804006631 ATP binding site [chemical binding]; other site 1130804006632 Q-loop/lid; other site 1130804006633 ABC transporter signature motif; other site 1130804006634 Walker B; other site 1130804006635 D-loop; other site 1130804006636 H-loop/switch region; other site 1130804006637 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 1130804006638 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1130804006639 Walker A/P-loop; other site 1130804006640 ATP binding site [chemical binding]; other site 1130804006641 Q-loop/lid; other site 1130804006642 ABC transporter signature motif; other site 1130804006643 Walker B; other site 1130804006644 D-loop; other site 1130804006645 H-loop/switch region; other site 1130804006646 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1130804006647 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1130804006648 Helix-turn-helix domain; Region: HTH_25; pfam13413 1130804006649 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1130804006650 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1130804006651 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1130804006652 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1130804006653 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1130804006654 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1130804006655 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 1130804006656 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1130804006657 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1130804006658 Walker A/P-loop; other site 1130804006659 ATP binding site [chemical binding]; other site 1130804006660 Q-loop/lid; other site 1130804006661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1130804006662 ABC transporter signature motif; other site 1130804006663 Walker B; other site 1130804006664 D-loop; other site 1130804006665 H-loop/switch region; other site 1130804006666 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1130804006667 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 1130804006668 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 1130804006669 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 1130804006670 active site 1130804006671 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1130804006672 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1130804006673 active site 1130804006674 HIGH motif; other site 1130804006675 dimer interface [polypeptide binding]; other site 1130804006676 KMSKS motif; other site 1130804006677 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1130804006678 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804006679 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804006680 ABC transporter; Region: ABC_tran_2; pfam12848 1130804006681 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1130804006682 Predicted membrane protein [Function unknown]; Region: COG4485 1130804006683 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1130804006684 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1130804006685 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1130804006686 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 1130804006687 active site 1130804006688 phosphorylation site [posttranslational modification] 1130804006689 intermolecular recognition site; other site 1130804006690 dimerization interface [polypeptide binding]; other site 1130804006691 LytTr DNA-binding domain; Region: LytTR; pfam04397 1130804006692 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1130804006693 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1130804006694 COMC family; Region: ComC; pfam03047 1130804006695 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1130804006696 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1130804006697 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1130804006698 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 1130804006699 protein binding site [polypeptide binding]; other site 1130804006700 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1130804006701 ParB-like nuclease domain; Region: ParBc; pfam02195 1130804006702 KorB domain; Region: KorB; pfam08535