-- dump date 20140619_074222 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1305849000001 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1305849000002 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1305849000003 P-loop; other site 1305849000004 Magnesium ion binding site [ion binding]; other site 1305849000005 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1305849000006 Magnesium ion binding site [ion binding]; other site 1305849000007 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1305849000008 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 1305849000009 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1305849000010 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 1305849000011 active site 1305849000012 Int/Topo IB signature motif; other site 1305849000013 DNA binding site [nucleotide binding] 1305849000014 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849000015 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849000016 Integrase core domain; Region: rve; pfam00665 1305849000017 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1305849000018 Class I aldolases; Region: Aldolase_Class_I; cl17187 1305849000019 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 1305849000020 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 1305849000021 dimer interface [polypeptide binding]; other site 1305849000022 active site 1305849000023 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 1305849000024 putative active site [active] 1305849000025 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1305849000026 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849000027 DNA-binding site [nucleotide binding]; DNA binding site 1305849000028 UTRA domain; Region: UTRA; pfam07702 1305849000029 putative transposase OrfB; Reviewed; Region: PHA02517 1305849000030 HTH-like domain; Region: HTH_21; pfam13276 1305849000031 Integrase core domain; Region: rve; pfam00665 1305849000032 Integrase core domain; Region: rve_2; pfam13333 1305849000033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849000034 Transposase; Region: HTH_Tnp_1; pfam01527 1305849000035 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849000036 Helix-turn-helix domain; Region: HTH_28; pfam13518 1305849000037 Helix-turn-helix domain; Region: HTH_28; pfam13518 1305849000038 Winged helix-turn helix; Region: HTH_29; pfam13551 1305849000039 Homeodomain-like domain; Region: HTH_32; pfam13565 1305849000040 HTH-like domain; Region: HTH_21; pfam13276 1305849000041 Integrase core domain; Region: rve; pfam00665 1305849000042 Integrase core domain; Region: rve; pfam00665 1305849000043 Integrase core domain; Region: rve_2; pfam13333 1305849000044 Transposase, Mutator family; Region: Transposase_mut; cl19537 1305849000045 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1305849000046 Transposase, Mutator family; Region: Transposase_mut; cl19537 1305849000047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1305849000048 Integrase core domain; Region: rve; pfam00665 1305849000049 Transposase; Region: HTH_Tnp_1; pfam01527 1305849000050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849000051 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1305849000052 Integrase core domain; Region: rve; pfam00665 1305849000053 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1305849000054 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1305849000055 Presynaptic Site I dimer interface [polypeptide binding]; other site 1305849000056 catalytic residues [active] 1305849000057 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1305849000058 Synaptic Flat tetramer interface [polypeptide binding]; other site 1305849000059 Synaptic Site I dimer interface [polypeptide binding]; other site 1305849000060 DNA binding site [nucleotide binding] 1305849000061 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 1305849000062 DNA-binding interface [nucleotide binding]; DNA binding site 1305849000063 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 1305849000064 Dimer interface [polypeptide binding]; other site 1305849000065 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1305849000066 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1305849000067 catalytic residues [active] 1305849000068 catalytic nucleophile [active] 1305849000069 Presynaptic Site I dimer interface [polypeptide binding]; other site 1305849000070 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1305849000071 Synaptic Flat tetramer interface [polypeptide binding]; other site 1305849000072 Synaptic Site I dimer interface [polypeptide binding]; other site 1305849000073 DNA binding site [nucleotide binding] 1305849000074 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1305849000075 BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of...; Region: GH25_BacA-like; cd06418 1305849000076 active site 1305849000077 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1305849000078 Integrase core domain; Region: rve; pfam00665 1305849000079 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1305849000080 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 1305849000081 dimer interface [polypeptide binding]; other site 1305849000082 phosphorylation site [posttranslational modification] 1305849000083 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 1305849000084 ATP binding site [chemical binding]; other site 1305849000085 Mg2+ binding site [ion binding]; other site 1305849000086 G-X-G motif; other site 1305849000087 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1305849000088 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 1305849000089 active site 1305849000090 phosphorylation site [posttranslational modification] 1305849000091 intermolecular recognition site; other site 1305849000092 dimerization interface [polypeptide binding]; other site 1305849000093 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 1305849000094 DNA binding site [nucleotide binding] 1305849000095 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1305849000096 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 1305849000097 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; cl18945 1305849000098 catalytic residue [active] 1305849000099 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849000100 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849000101 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849000102 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1305849000103 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849000104 Walker A/P-loop; other site 1305849000105 ATP binding site [chemical binding]; other site 1305849000106 Q-loop/lid; other site 1305849000107 ABC transporter signature motif; other site 1305849000108 Walker B; other site 1305849000109 D-loop; other site 1305849000110 H-loop/switch region; other site 1305849000111 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1305849000112 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 1305849000113 dimer interface [polypeptide binding]; other site 1305849000114 conserved gate region; other site 1305849000115 putative PBP binding loops; other site 1305849000116 ABC-ATPase subunit interface; other site 1305849000117 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 1305849000118 dimer interface [polypeptide binding]; other site 1305849000119 conserved gate region; other site 1305849000120 putative PBP binding loops; other site 1305849000121 ABC-ATPase subunit interface; other site 1305849000122 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1305849000123 Sulfatase; Region: Sulfatase; cl19157 1305849000124 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1305849000125 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1305849000126 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1305849000127 histidinol-phosphatase; Provisional; Region: PRK05588 1305849000128 active site 1305849000129 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; cl00197 1305849000130 active site 1305849000131 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1305849000132 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 1305849000133 Transposase domain (DUF772); Region: DUF772; pfam05598 1305849000134 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1305849000135 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1305849000136 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1305849000137 FtsX-like permease family; Region: FtsX; pfam02687 1305849000138 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1305849000139 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1305849000140 Walker A/P-loop; other site 1305849000141 ATP binding site [chemical binding]; other site 1305849000142 Q-loop/lid; other site 1305849000143 ABC transporter signature motif; other site 1305849000144 Walker B; other site 1305849000145 D-loop; other site 1305849000146 H-loop/switch region; other site 1305849000147 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849000148 Transposase; Region: HTH_Tnp_1; pfam01527 1305849000149 putative transposase OrfB; Reviewed; Region: PHA02517 1305849000150 Integrase core domain; Region: rve; pfam00665 1305849000151 Integrase core domain; Region: rve_3; pfam13683 1305849000152 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 1305849000153 catalytic residues [active] 1305849000154 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849000155 Transposase; Region: HTH_Tnp_1; pfam01527 1305849000156 putative transposase OrfB; Reviewed; Region: PHA02517 1305849000157 Integrase core domain; Region: rve; pfam00665 1305849000158 Integrase core domain; Region: rve_3; pfam13683 1305849000159 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1305849000160 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 1305849000161 active site 1305849000162 DNA binding site [nucleotide binding] 1305849000163 Int/Topo IB signature motif; other site 1305849000164 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1305849000165 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1305849000166 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1305849000167 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 1305849000168 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 1305849000169 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 1305849000170 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1305849000171 Coenzyme A transferase; Region: CoA_trans; cl17247 1305849000172 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1305849000173 citrate lyase subunit gamma; Provisional; Region: PRK13253 1305849000174 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1305849000175 active site 1305849000176 nucleotide binding site [chemical binding]; other site 1305849000177 HIGH motif; other site 1305849000178 KMSKS motif; other site 1305849000179 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1305849000180 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 1305849000181 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1305849000182 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1305849000183 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1305849000184 putative NAD(P) binding site [chemical binding]; other site 1305849000185 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1305849000186 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1305849000187 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1305849000188 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1305849000189 P-loop; other site 1305849000190 Magnesium ion binding site [ion binding]; other site 1305849000191 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1305849000192 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 1305849000193 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1305849000194 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1305849000195 Integrase core domain; Region: rve; pfam00665 1305849000196 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849000197 Transposase; Region: HTH_Tnp_1; pfam01527 1305849000198 putative transposase OrfB; Reviewed; Region: PHA02517 1305849000199 HTH-like domain; Region: HTH_21; pfam13276 1305849000200 Integrase core domain; Region: rve; pfam00665 1305849000201 Integrase core domain; Region: rve_2; pfam13333 1305849000202 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1305849000203 active site 1305849000204 catalytic residues [active] 1305849000205 Protein of unknown function (DUF3884); Region: DUF3884; pfam13024 1305849000206 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 1305849000207 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1305849000208 phosphotransferase system, lactose specific, IIC component; Region: lac_pts_IIC; TIGR00394 1305849000209 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 1305849000210 active site 1305849000211 P-loop; other site 1305849000212 phosphorylation site [posttranslational modification] 1305849000213 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 1305849000214 methionine cluster; other site 1305849000215 active site 1305849000216 phosphorylation site [posttranslational modification] 1305849000217 metal binding site [ion binding]; metal-binding site 1305849000218 Class I aldolases; Region: Aldolase_Class_I; cl17187 1305849000219 Class I aldolases; Region: Aldolase_Class_I; cl17187 1305849000220 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 1305849000221 putative substrate binding site [chemical binding]; other site 1305849000222 putative ATP binding site [chemical binding]; other site 1305849000223 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 1305849000224 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 1305849000225 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1305849000226 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1305849000227 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1305849000228 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1305849000229 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 1305849000230 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 1305849000231 Bacterial DNA topoisomerase I DNA-binding domain; Region: TOP1Ac; smart00437 1305849000232 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1305849000233 active site 1305849000234 putative metal-binding site [ion binding]; other site 1305849000235 putative interdomain interaction site [polypeptide binding]; other site 1305849000236 putative nucleotide binding site [chemical binding]; other site 1305849000237 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 1305849000238 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 1305849000239 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1305849000240 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1305849000241 Cl binding site [ion binding]; other site 1305849000242 oligomer interface [polypeptide binding]; other site 1305849000243 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1305849000244 Integrase core domain; Region: rve; pfam00665 1305849000245 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1305849000246 Transposase, Mutator family; Region: Transposase_mut; cl19537 1305849000247 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; pfam01521 1305849000248 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 1305849000249 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1305849000250 active site 1305849000251 motif I; other site 1305849000252 motif II; other site 1305849000253 Archaeal flagella protein; Region: Arch_fla_DE; pfam04659 1305849000254 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 1305849000255 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849000256 Coenzyme A binding pocket [chemical binding]; other site 1305849000257 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849000258 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849000259 Integrase core domain; Region: rve; pfam00665 1305849000260 cspA thermoregulator; EFAU085_p1120 1305849000261 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1305849000262 DNA-binding site [nucleotide binding]; DNA binding site 1305849000263 RNA-binding motif; other site 1305849000264 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849000265 Integrase core domain; Region: rve; pfam00665 1305849000266 Integrase core domain; Region: rve_3; cl15866 1305849000267 YjcQ protein; Region: YjcQ; pfam09639 1305849000268 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1305849000269 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 1305849000270 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1305849000271 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1305849000272 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1305849000273 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1305849000274 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1305849000275 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1305849000276 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1305849000277 Probable transposase; Region: OrfB_IS605; pfam01385 1305849000278 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1305849000279 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1305849000280 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1305849000281 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1305849000282 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1305849000283 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1305849000284 Toprim-like; Region: Toprim_2; pfam13155 1305849000285 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1305849000286 active site 1305849000287 metal binding site [ion binding]; metal-binding site 1305849000288 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1305849000289 active site 1305849000290 putative metal-binding site [ion binding]; other site 1305849000291 putative interdomain interaction site [polypeptide binding]; other site 1305849000292 putative nucleotide binding site [chemical binding]; other site 1305849000293 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; cl11986 1305849000294 domain I; other site 1305849000295 DNA binding groove [nucleotide binding] 1305849000296 phosphate binding site [ion binding]; other site 1305849000297 domain III; other site 1305849000298 nucleotide binding site [chemical binding]; other site 1305849000299 catalytic site [active] 1305849000300 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; cl11986 1305849000301 domain II; other site 1305849000302 domain IV; other site 1305849000303 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1305849000304 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1305849000305 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1305849000306 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1305849000307 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 1305849000308 dimer interface [polypeptide binding]; other site 1305849000309 ssDNA binding site [nucleotide binding]; other site 1305849000310 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1305849000311 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1305849000312 toxin-antitoxin system, toxin component, Txe/YoeB family; Region: toxin_Txe_YoeB; TIGR02116 1305849000313 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1305849000314 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1305849000315 catalytic residues [active] 1305849000316 catalytic nucleophile [active] 1305849000317 Presynaptic Site I dimer interface [polypeptide binding]; other site 1305849000318 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1305849000319 Synaptic Flat tetramer interface [polypeptide binding]; other site 1305849000320 Synaptic Site I dimer interface [polypeptide binding]; other site 1305849000321 DNA binding site [nucleotide binding] 1305849000322 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 1305849000323 DNA-binding interface [nucleotide binding]; DNA binding site 1305849000324 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1305849000325 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1305849000326 catalytic residues [active] 1305849000327 catalytic nucleophile [active] 1305849000328 Presynaptic Site I dimer interface [polypeptide binding]; other site 1305849000329 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1305849000330 Synaptic Flat tetramer interface [polypeptide binding]; other site 1305849000331 Synaptic Site I dimer interface [polypeptide binding]; other site 1305849000332 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 1305849000333 DNA-binding interface [nucleotide binding]; DNA binding site 1305849000334 DNA polymerase IV; Reviewed; Region: PRK03103 1305849000335 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1305849000336 active site 1305849000337 DNA binding site [nucleotide binding] 1305849000338 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 1305849000339 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 1305849000340 Transcriptional regulator; Region: Rrf2; cl17282 1305849000341 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849000342 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849000343 Homeodomain-like domain; Region: HTH_32; pfam13565 1305849000344 Integrase core domain; Region: rve; pfam00665 1305849000345 Integrase core domain; Region: rve_3; cl15866 1305849000346 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1305849000347 Integrase core domain; Region: rve; pfam00665 1305849000348 Omega Transcriptional Repressor; Region: Omega_Repress; pfam07764 1305849000349 Bacterial epsilon antitoxin; Region: Epsilon_antitox; pfam08998 1305849000350 Zeta toxin; Region: Zeta_toxin; pfam06414 1305849000351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1305849000352 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 1305849000353 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 1305849000354 S-adenosylmethionine binding site [chemical binding]; other site 1305849000355 Aminoglycoside 3'-phosphotransferase (APH). The APH 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...; Region: APH; cd05150 1305849000356 active site 1305849000357 ATP binding site [chemical binding]; other site 1305849000358 Phosphotransferase enzyme family; Region: APH; pfam01636 1305849000359 antibiotic binding site [chemical binding]; other site 1305849000360 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1305849000361 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1305849000362 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 1305849000363 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 1305849000364 S-adenosylmethionine binding site [chemical binding]; other site 1305849000365 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1305849000366 active site 1305849000367 NTP binding site [chemical binding]; other site 1305849000368 metal binding triad [ion binding]; metal-binding site 1305849000369 antibiotic binding site [chemical binding]; other site 1305849000370 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1305849000371 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 1305849000372 non-specific DNA binding site [nucleotide binding]; other site 1305849000373 salt bridge; other site 1305849000374 sequence-specific DNA binding site [nucleotide binding]; other site 1305849000375 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1305849000376 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1305849000377 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849000378 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849000379 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1305849000380 Integrase core domain; Region: rve; pfam00665 1305849000381 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1305849000382 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1305849000383 Probable transposase; Region: OrfB_IS605; pfam01385 1305849000384 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1305849000385 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1305849000386 YfbU domain; Region: YfbU; cl01137 1305849000387 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1305849000388 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1305849000389 catalytic residues [active] 1305849000390 catalytic nucleophile [active] 1305849000391 Presynaptic Site I dimer interface [polypeptide binding]; other site 1305849000392 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1305849000393 Synaptic Flat tetramer interface [polypeptide binding]; other site 1305849000394 Synaptic Site I dimer interface [polypeptide binding]; other site 1305849000395 DNA binding site [nucleotide binding] 1305849000396 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 1305849000397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1305849000398 Integrase core domain; Region: rve; pfam00665 1305849000399 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1305849000400 Fic/DOC family; Region: Fic; cl00960 1305849000401 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1305849000402 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1305849000403 catalytic residues [active] 1305849000404 catalytic nucleophile [active] 1305849000405 Presynaptic Site I dimer interface [polypeptide binding]; other site 1305849000406 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1305849000407 Synaptic Flat tetramer interface [polypeptide binding]; other site 1305849000408 Synaptic Site I dimer interface [polypeptide binding]; other site 1305849000409 DNA binding site [nucleotide binding] 1305849000410 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 1305849000411 DNA-binding interface [nucleotide binding]; DNA binding site 1305849000412 Integrase core domain; Region: rve; pfam00665 1305849000413 Integrase core domain; Region: rve_3; pfam13683 1305849000414 putative transposase OrfB; Reviewed; Region: PHA02517 1305849000415 HTH-like domain; Region: HTH_21; pfam13276 1305849000416 Integrase core domain; Region: rve; pfam00665 1305849000417 Integrase core domain; Region: rve_2; pfam13333 1305849000418 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849000419 Transposase; Region: HTH_Tnp_1; pfam01527 1305849000420 HTH-like domain; Region: HTH_21; pfam13276 1305849000421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849000422 Transposase; Region: HTH_Tnp_1; pfam01527 1305849000423 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1305849000424 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1305849000425 P-loop; other site 1305849000426 Magnesium ion binding site [ion binding]; other site 1305849000427 Initiator Replication protein; Region: Rep_3; pfam01051 1305849000428 HTH domain; Region: HTH_11; cl17392 1305849000429 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1305849000430 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 1305849000431 non-specific DNA binding site [nucleotide binding]; other site 1305849000432 salt bridge; other site 1305849000433 sequence-specific DNA binding site [nucleotide binding]; other site 1305849000434 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 1305849000435 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 1305849000436 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 1305849000437 Frag1/DRAM/Sfk1 family; Region: Frag1; pfam10277 1305849000438 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1305849000439 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849000440 Walker A/P-loop; other site 1305849000441 ATP binding site [chemical binding]; other site 1305849000442 Q-loop/lid; other site 1305849000443 ABC transporter signature motif; other site 1305849000444 Walker B; other site 1305849000445 D-loop; other site 1305849000446 H-loop/switch region; other site 1305849000447 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1305849000448 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1305849000449 UbiA family of prenyltransferases (PTases); Region: PT_UbiA; cl00337 1305849000450 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1305849000451 Replication initiation factor; Region: Rep_trans; pfam02486 1305849000452 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1305849000453 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1305849000454 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 1305849000455 Walker A motif; other site 1305849000456 ATP binding site [chemical binding]; other site 1305849000457 Walker B motif; other site 1305849000458 arginine finger; other site 1305849000459 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 1305849000460 DnaA box-binding interface [nucleotide binding]; other site 1305849000461 DNA polymerase III subunit beta; Validated; Region: PRK05643 1305849000462 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 1305849000463 putative DNA binding surface [nucleotide binding]; other site 1305849000464 dimer interface [polypeptide binding]; other site 1305849000465 beta-clamp/clamp loader binding surface; other site 1305849000466 beta-clamp/translesion DNA polymerase binding surface; other site 1305849000467 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 1305849000468 recombination protein F; Reviewed; Region: recF; PRK00064 1305849000469 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1305849000470 Walker A/P-loop; other site 1305849000471 ATP binding site [chemical binding]; other site 1305849000472 Q-loop/lid; other site 1305849000473 ABC transporter signature motif; other site 1305849000474 Walker B; other site 1305849000475 D-loop; other site 1305849000476 H-loop/switch region; other site 1305849000477 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1305849000478 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 1305849000479 ATP binding site [chemical binding]; other site 1305849000480 Mg2+ binding site [ion binding]; other site 1305849000481 G-X-G motif; other site 1305849000482 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 1305849000483 anchoring element; other site 1305849000484 dimer interface [polypeptide binding]; other site 1305849000485 ATP binding site [chemical binding]; other site 1305849000486 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 1305849000487 active site 1305849000488 putative metal-binding site [ion binding]; other site 1305849000489 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1305849000490 DNA gyrase subunit A; Validated; Region: PRK05560 1305849000491 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 1305849000492 CAP-like domain; other site 1305849000493 active site 1305849000494 primary dimer interface [polypeptide binding]; other site 1305849000495 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1305849000496 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1305849000497 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1305849000498 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1305849000499 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1305849000500 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1305849000501 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1305849000502 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1305849000503 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 1305849000504 dimer interface [polypeptide binding]; other site 1305849000505 ssDNA binding site [nucleotide binding]; other site 1305849000506 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1305849000507 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1305849000508 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1305849000509 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1305849000510 DHH family; Region: DHH; pfam01368 1305849000511 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1305849000512 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1305849000513 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1305849000514 replicative DNA helicase; Provisional; Region: PRK05748 1305849000515 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1305849000516 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 1305849000517 Walker A motif; other site 1305849000518 ATP binding site [chemical binding]; other site 1305849000519 Walker B motif; other site 1305849000520 DNA binding loops [nucleotide binding] 1305849000521 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 1305849000522 GDP-binding site [chemical binding]; other site 1305849000523 ACT binding site; other site 1305849000524 IMP binding site; other site 1305849000525 EDD domain protein, DegV family; Region: DegV; TIGR00762 1305849000526 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1305849000527 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849000528 ABC transporter; Region: ABC_tran_2; pfam12848 1305849000529 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849000530 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 1305849000531 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1305849000532 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 1305849000533 PYR/PP interface [polypeptide binding]; other site 1305849000534 dimer interface [polypeptide binding]; other site 1305849000535 tetramer interface [polypeptide binding]; other site 1305849000536 TPP binding site [chemical binding]; other site 1305849000537 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1305849000538 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 1305849000539 TPP-binding site [chemical binding]; other site 1305849000540 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1305849000541 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 1305849000542 VanZ like family; Region: VanZ; pfam04892 1305849000543 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1305849000544 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1305849000545 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1305849000546 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 1305849000547 motif II; other site 1305849000548 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1305849000549 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1305849000550 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1305849000551 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 1305849000552 beta-galactosidase; Region: BGL; TIGR03356 1305849000553 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 1305849000554 methionine cluster; other site 1305849000555 active site 1305849000556 phosphorylation site [posttranslational modification] 1305849000557 metal binding site [ion binding]; metal-binding site 1305849000558 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 1305849000559 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 1305849000560 active site 1305849000561 P-loop; other site 1305849000562 phosphorylation site [posttranslational modification] 1305849000563 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 1305849000564 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 1305849000565 GMP synthase; Reviewed; Region: guaA; PRK00074 1305849000566 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1305849000567 AMP/PPi binding site [chemical binding]; other site 1305849000568 candidate oxyanion hole; other site 1305849000569 catalytic triad [active] 1305849000570 potential glutamine specificity residues [chemical binding]; other site 1305849000571 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 1305849000572 ATP Binding subdomain [chemical binding]; other site 1305849000573 Ligand Binding sites [chemical binding]; other site 1305849000574 Dimerization subdomain; other site 1305849000575 pantothenate kinase; Provisional; Region: PRK05439 1305849000576 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 1305849000577 ATP-binding site [chemical binding]; other site 1305849000578 CoA-binding site [chemical binding]; other site 1305849000579 Mg2+-binding site [ion binding]; other site 1305849000580 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1305849000581 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 1305849000582 S-adenosylmethionine binding site [chemical binding]; other site 1305849000583 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849000584 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849000585 DNA binding site [nucleotide binding] 1305849000586 domain linker motif; other site 1305849000587 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1305849000588 dimerization interface [polypeptide binding]; other site 1305849000589 ligand binding site [chemical binding]; other site 1305849000590 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1305849000591 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1305849000592 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1305849000593 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1305849000594 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1305849000595 intersubunit interface [polypeptide binding]; other site 1305849000596 active site 1305849000597 catalytic residue [active] 1305849000598 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 1305849000599 active site 1305849000600 catalytic motif [active] 1305849000601 Zn binding site [ion binding]; other site 1305849000602 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1305849000603 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 1305849000604 ligand binding site [chemical binding]; other site 1305849000605 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1305849000606 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1305849000607 Walker A/P-loop; other site 1305849000608 ATP binding site [chemical binding]; other site 1305849000609 Q-loop/lid; other site 1305849000610 ABC transporter signature motif; other site 1305849000611 Walker B; other site 1305849000612 D-loop; other site 1305849000613 H-loop/switch region; other site 1305849000614 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1305849000615 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 1305849000616 TM-ABC transporter signature motif; other site 1305849000617 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 1305849000618 TM-ABC transporter signature motif; other site 1305849000619 phosphopentomutase; Provisional; Region: PRK05362 1305849000620 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1305849000621 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 1305849000622 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1305849000623 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 1305849000624 catalytic core [active] 1305849000625 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1305849000626 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1305849000627 catalytic residues [active] 1305849000628 catalytic nucleophile [active] 1305849000629 Presynaptic Site I dimer interface [polypeptide binding]; other site 1305849000630 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1305849000631 Synaptic Flat tetramer interface [polypeptide binding]; other site 1305849000632 Synaptic Site I dimer interface [polypeptide binding]; other site 1305849000633 DNA binding site [nucleotide binding] 1305849000634 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 1305849000635 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1305849000636 active site 1305849000637 dimer interface [polypeptide binding]; other site 1305849000638 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 1305849000639 S17 interaction site [polypeptide binding]; other site 1305849000640 S8 interaction site; other site 1305849000641 16S rRNA interaction site [nucleotide binding]; other site 1305849000642 streptomycin interaction site [chemical binding]; other site 1305849000643 23S rRNA interaction site [nucleotide binding]; other site 1305849000644 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1305849000645 30S ribosomal protein S7; Validated; Region: PRK05302 1305849000646 elongation factor G; Reviewed; Region: PRK00007 1305849000647 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1305849000648 G1 box; other site 1305849000649 putative GEF interaction site [polypeptide binding]; other site 1305849000650 GTP/Mg2+ binding site [chemical binding]; other site 1305849000651 Switch I region; other site 1305849000652 G2 box; other site 1305849000653 G3 box; other site 1305849000654 Switch II region; other site 1305849000655 G4 box; other site 1305849000656 G5 box; other site 1305849000657 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 1305849000658 Elongation Factor G, domain II; Region: EFG_II; pfam14492 1305849000659 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 1305849000660 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 1305849000661 elongation factor Tu; Reviewed; Region: PRK00049 1305849000662 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1305849000663 G1 box; other site 1305849000664 GEF interaction site [polypeptide binding]; other site 1305849000665 GTP/Mg2+ binding site [chemical binding]; other site 1305849000666 Switch I region; other site 1305849000667 G2 box; other site 1305849000668 G3 box; other site 1305849000669 Switch II region; other site 1305849000670 G4 box; other site 1305849000671 G5 box; other site 1305849000672 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 1305849000673 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 1305849000674 Antibiotic Binding Site [chemical binding]; other site 1305849000675 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1305849000676 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1305849000677 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1305849000678 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1305849000679 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1305849000680 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1305849000681 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1305849000682 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1305849000683 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 1305849000684 putative translocon binding site; other site 1305849000685 protein-rRNA interface [nucleotide binding]; other site 1305849000686 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1305849000687 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 1305849000688 G-X-X-G motif; other site 1305849000689 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1305849000690 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 1305849000691 23S rRNA interface [nucleotide binding]; other site 1305849000692 5S rRNA interface [nucleotide binding]; other site 1305849000693 putative antibiotic binding site [chemical binding]; other site 1305849000694 L25 interface [polypeptide binding]; other site 1305849000695 L27 interface [polypeptide binding]; other site 1305849000696 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 1305849000697 23S rRNA interface [nucleotide binding]; other site 1305849000698 putative translocon interaction site; other site 1305849000699 signal recognition particle (SRP54) interaction site; other site 1305849000700 L23 interface [polypeptide binding]; other site 1305849000701 trigger factor interaction site; other site 1305849000702 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1305849000703 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1305849000704 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1305849000705 RNA binding site [nucleotide binding]; other site 1305849000706 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1305849000707 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1305849000708 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1305849000709 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1305849000710 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1305849000711 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1305849000712 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1305849000713 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1305849000714 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 1305849000715 5S rRNA interface [nucleotide binding]; other site 1305849000716 L27 interface [polypeptide binding]; other site 1305849000717 23S rRNA interface [nucleotide binding]; other site 1305849000718 L5 interface [polypeptide binding]; other site 1305849000719 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1305849000720 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1305849000721 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1305849000722 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 1305849000723 23S rRNA binding site [nucleotide binding]; other site 1305849000724 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1305849000725 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1305849000726 SecY translocase; Region: SecY; pfam00344 1305849000727 adenylate kinase; Reviewed; Region: adk; PRK00279 1305849000728 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 1305849000729 AMP-binding site [chemical binding]; other site 1305849000730 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1305849000731 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 1305849000732 rRNA binding site [nucleotide binding]; other site 1305849000733 predicted 30S ribosome binding site; other site 1305849000734 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1305849000735 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1305849000736 30S ribosomal protein S11; Validated; Region: PRK05309 1305849000737 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1305849000738 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1305849000739 alphaNTD homodimer interface [polypeptide binding]; other site 1305849000740 alphaNTD - beta interaction site [polypeptide binding]; other site 1305849000741 alphaNTD - beta' interaction site [polypeptide binding]; other site 1305849000742 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1305849000743 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1305849000744 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 1305849000745 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1305849000746 Walker A/P-loop; other site 1305849000747 ATP binding site [chemical binding]; other site 1305849000748 Q-loop/lid; other site 1305849000749 ABC transporter signature motif; other site 1305849000750 Walker B; other site 1305849000751 D-loop; other site 1305849000752 H-loop/switch region; other site 1305849000753 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 1305849000754 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1305849000755 Walker A/P-loop; other site 1305849000756 ATP binding site [chemical binding]; other site 1305849000757 Q-loop/lid; other site 1305849000758 ABC transporter signature motif; other site 1305849000759 Walker B; other site 1305849000760 D-loop; other site 1305849000761 H-loop/switch region; other site 1305849000762 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1305849000763 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1305849000764 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1305849000765 dimerization interface 3.5A [polypeptide binding]; other site 1305849000766 active site 1305849000767 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1305849000768 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1305849000769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1305849000770 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1305849000771 DAK2 domain; Region: Dak2; pfam02734 1305849000772 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 1305849000773 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1305849000774 Y-family of DNA polymerases; Region: PolY; cl12025 1305849000775 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 1305849000776 generic binding surface II; other site 1305849000777 ssDNA binding site; other site 1305849000778 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 1305849000779 ATP binding site [chemical binding]; other site 1305849000780 putative Mg++ binding site [ion binding]; other site 1305849000781 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 1305849000782 nucleotide binding region [chemical binding]; other site 1305849000783 ATP-binding site [chemical binding]; other site 1305849000784 putative phosphate acyltransferase; Provisional; Region: PRK05331 1305849000785 acyl carrier protein; Provisional; Region: acpP; PRK00982 1305849000786 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1305849000787 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1305849000788 Walker A/P-loop; other site 1305849000789 ATP binding site [chemical binding]; other site 1305849000790 Q-loop/lid; other site 1305849000791 ABC transporter signature motif; other site 1305849000792 Walker B; other site 1305849000793 D-loop; other site 1305849000794 H-loop/switch region; other site 1305849000795 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1305849000796 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1305849000797 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1305849000798 Walker A/P-loop; other site 1305849000799 ATP binding site [chemical binding]; other site 1305849000800 Q-loop/lid; other site 1305849000801 ABC transporter signature motif; other site 1305849000802 Walker B; other site 1305849000803 D-loop; other site 1305849000804 H-loop/switch region; other site 1305849000805 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1305849000806 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1305849000807 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 1305849000808 dimer interface [polypeptide binding]; other site 1305849000809 conserved gate region; other site 1305849000810 putative PBP binding loops; other site 1305849000811 ABC-ATPase subunit interface; other site 1305849000812 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1305849000813 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 1305849000814 dimer interface [polypeptide binding]; other site 1305849000815 conserved gate region; other site 1305849000816 putative PBP binding loops; other site 1305849000817 ABC-ATPase subunit interface; other site 1305849000818 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1305849000819 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 1305849000820 peptide binding site [polypeptide binding]; other site 1305849000821 ribonuclease III; Reviewed; Region: rnc; PRK00102 1305849000822 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 1305849000823 dimerization interface [polypeptide binding]; other site 1305849000824 active site 1305849000825 metal binding site [ion binding]; metal-binding site 1305849000826 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 1305849000827 dsRNA binding site [nucleotide binding]; other site 1305849000828 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1305849000829 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1305849000830 Walker A/P-loop; other site 1305849000831 ATP binding site [chemical binding]; other site 1305849000832 Q-loop/lid; other site 1305849000833 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1305849000834 Nucleoporin complex subunit 54; Region: Nup54; pfam13874 1305849000835 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 1305849000836 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1305849000837 ABC transporter signature motif; other site 1305849000838 Walker B; other site 1305849000839 D-loop; other site 1305849000840 H-loop/switch region; other site 1305849000841 sugar phosphate phosphatase; Provisional; Region: PRK10513 1305849000842 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 1305849000843 active site 1305849000844 motif I; other site 1305849000845 motif II; other site 1305849000846 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 1305849000847 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1305849000848 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1305849000849 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 1305849000850 P loop; other site 1305849000851 GTP binding site [chemical binding]; other site 1305849000852 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1305849000853 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1305849000854 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1305849000855 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 1305849000856 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1305849000857 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 1305849000858 ABC-ATPase subunit interface; other site 1305849000859 dimer interface [polypeptide binding]; other site 1305849000860 putative PBP binding regions; other site 1305849000861 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 1305849000862 ABC-ATPase subunit interface; other site 1305849000863 dimer interface [polypeptide binding]; other site 1305849000864 putative PBP binding regions; other site 1305849000865 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1305849000866 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1305849000867 Walker A/P-loop; other site 1305849000868 ATP binding site [chemical binding]; other site 1305849000869 Q-loop/lid; other site 1305849000870 ABC transporter signature motif; other site 1305849000871 Walker B; other site 1305849000872 D-loop; other site 1305849000873 H-loop/switch region; other site 1305849000874 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1305849000875 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 1305849000876 putative ligand binding residues [chemical binding]; other site 1305849000877 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; pfam01521 1305849000878 putative phosphoesterase; Region: acc_ester; TIGR03729 1305849000879 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1305849000880 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1305849000881 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1305849000882 MULE transposase domain; Region: MULE; pfam10551 1305849000883 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849000884 Integrase core domain; Region: rve; pfam00665 1305849000885 Integrase core domain; Region: rve_3; cl15866 1305849000886 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849000887 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 1305849000888 amphipathic channel; other site 1305849000889 Asn-Pro-Ala signature motifs; other site 1305849000890 LrgA family; Region: LrgA; pfam03788 1305849000891 LrgB-like family; Region: LrgB; pfam04172 1305849000892 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849000893 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1305849000894 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 1305849000895 classical (c) SDRs; Region: SDR_c; cd05233 1305849000896 NAD(P) binding site [chemical binding]; other site 1305849000897 active site 1305849000898 QueT transporter; Region: QueT; pfam06177 1305849000899 BioY family; Region: BioY; pfam02632 1305849000900 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1305849000901 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1305849000902 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 1305849000903 RNA binding surface [nucleotide binding]; other site 1305849000904 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 1305849000905 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 1305849000906 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1305849000907 active site 1305849000908 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 1305849000909 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1305849000910 active site 1305849000911 motif I; other site 1305849000912 motif II; other site 1305849000913 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1305849000914 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1305849000915 putative active site [active] 1305849000916 metal binding site [ion binding]; metal-binding site 1305849000917 homodimer binding site [polypeptide binding]; other site 1305849000918 Protein of unknown function (DUF964); Region: DUF964; cl01483 1305849000919 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1305849000920 MutS domain I; Region: MutS_I; pfam01624 1305849000921 MutS domain II; Region: MutS_II; pfam05188 1305849000922 MutS domain III; Region: MutS_III; pfam05192 1305849000923 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1305849000924 Walker A/P-loop; other site 1305849000925 ATP binding site [chemical binding]; other site 1305849000926 Q-loop/lid; other site 1305849000927 ABC transporter signature motif; other site 1305849000928 Walker B; other site 1305849000929 D-loop; other site 1305849000930 H-loop/switch region; other site 1305849000931 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1305849000932 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 1305849000933 ATP binding site [chemical binding]; other site 1305849000934 Mg2+ binding site [ion binding]; other site 1305849000935 G-X-G motif; other site 1305849000936 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 1305849000937 ATP binding site [chemical binding]; other site 1305849000938 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 1305849000939 Maf-like protein; Region: Maf; pfam02545 1305849000940 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1305849000941 active site 1305849000942 dimer interface [polypeptide binding]; other site 1305849000943 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 1305849000944 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 1305849000945 active site turn [active] 1305849000946 phosphorylation site [posttranslational modification] 1305849000947 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1305849000948 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1305849000949 HPr interaction site; other site 1305849000950 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1305849000951 active site 1305849000952 phosphorylation site [posttranslational modification] 1305849000953 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 1305849000954 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849000955 DNA-binding site [nucleotide binding]; DNA binding site 1305849000956 UTRA domain; Region: UTRA; pfam07702 1305849000957 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1305849000958 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1305849000959 RuvA N terminal domain; Region: RuvA_N; pfam01330 1305849000960 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 1305849000961 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1305849000962 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1305849000963 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 1305849000964 Walker A motif; other site 1305849000965 ATP binding site [chemical binding]; other site 1305849000966 Walker B motif; other site 1305849000967 arginine finger; other site 1305849000968 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1305849000969 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1305849000970 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1305849000971 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1305849000972 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1305849000973 active site 1305849000974 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1305849000975 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 1305849000976 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1305849000977 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1305849000978 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1305849000979 Walker A/P-loop; other site 1305849000980 ATP binding site [chemical binding]; other site 1305849000981 Q-loop/lid; other site 1305849000982 ABC transporter signature motif; other site 1305849000983 Walker B; other site 1305849000984 D-loop; other site 1305849000985 H-loop/switch region; other site 1305849000986 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1305849000987 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 1305849000988 substrate binding pocket [chemical binding]; other site 1305849000989 membrane-bound complex binding site; other site 1305849000990 hinge residues; other site 1305849000991 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 1305849000992 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 1305849000993 dimer interface [polypeptide binding]; other site 1305849000994 conserved gate region; other site 1305849000995 putative PBP binding loops; other site 1305849000996 ABC-ATPase subunit interface; other site 1305849000997 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1305849000998 maltose O-acetyltransferase; Provisional; Region: PRK10092 1305849000999 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1305849001000 active site 1305849001001 substrate binding site [chemical binding]; other site 1305849001002 trimer interface [polypeptide binding]; other site 1305849001003 CoA binding site [chemical binding]; other site 1305849001004 Chorismate mutase type II; Region: CM_2; cl00693 1305849001005 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1305849001006 HTH domain; Region: HTH_11; pfam08279 1305849001007 3H domain; Region: 3H; pfam02829 1305849001008 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 1305849001009 active site 1305849001010 catalytic residues [active] 1305849001011 metal binding site [ion binding]; metal-binding site 1305849001012 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 1305849001013 16S/18S rRNA binding site [nucleotide binding]; other site 1305849001014 S13e-L30e interaction site [polypeptide binding]; other site 1305849001015 25S rRNA binding site [nucleotide binding]; other site 1305849001016 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1305849001017 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1305849001018 RNase E interface [polypeptide binding]; other site 1305849001019 trimer interface [polypeptide binding]; other site 1305849001020 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1305849001021 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1305849001022 RNase E interface [polypeptide binding]; other site 1305849001023 trimer interface [polypeptide binding]; other site 1305849001024 active site 1305849001025 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 1305849001026 putative nucleic acid binding region [nucleotide binding]; other site 1305849001027 G-X-X-G motif; other site 1305849001028 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 1305849001029 RNA binding site [nucleotide binding]; other site 1305849001030 domain interface; other site 1305849001031 K+ potassium transporter; Region: K_trans; cl15781 1305849001032 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1305849001033 Domain of unknown function DUF21; Region: DUF21; pfam01595 1305849001034 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 1305849001035 Transporter associated domain; Region: CorC_HlyC; smart01091 1305849001036 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1305849001037 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1305849001038 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 1305849001039 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1305849001040 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1305849001041 5S rRNA interface [nucleotide binding]; other site 1305849001042 CTC domain interface [polypeptide binding]; other site 1305849001043 L16 interface [polypeptide binding]; other site 1305849001044 Ribosomal protein TL5, C-terminal domain; Region: Ribosomal_TL5_C; pfam14693 1305849001045 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1305849001046 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1305849001047 active site 1305849001048 uracil binding [chemical binding]; other site 1305849001049 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 1305849001050 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 1305849001051 motif II; other site 1305849001052 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 1305849001053 ATP-binding site [chemical binding]; other site 1305849001054 Sugar specificity; other site 1305849001055 Pyrimidine base specificity; other site 1305849001056 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849001057 Helix-turn-helix domain; Region: HTH_28; pfam13518 1305849001058 Helix-turn-helix domain; Region: HTH_28; pfam13518 1305849001059 Winged helix-turn helix; Region: HTH_29; pfam13551 1305849001060 Homeodomain-like domain; Region: HTH_32; pfam13565 1305849001061 putative transposase OrfB; Reviewed; Region: PHA02517 1305849001062 HTH-like domain; Region: HTH_21; pfam13276 1305849001063 Integrase core domain; Region: rve; pfam00665 1305849001064 Integrase core domain; Region: rve_2; pfam13333 1305849001065 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1305849001066 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1305849001067 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1305849001068 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 1305849001069 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1305849001070 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1305849001071 active site 1305849001072 ATP binding site [chemical binding]; other site 1305849001073 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1305849001074 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1305849001075 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1305849001076 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1305849001077 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1305849001078 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1305849001079 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1305849001080 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1305849001081 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 1305849001082 ATP binding site [chemical binding]; other site 1305849001083 Mg++ binding site [ion binding]; other site 1305849001084 motif III; other site 1305849001085 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 1305849001086 nucleotide binding region [chemical binding]; other site 1305849001087 ATP-binding site [chemical binding]; other site 1305849001088 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1305849001089 alanine racemase; Reviewed; Region: alr; PRK00053 1305849001090 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1305849001091 active site 1305849001092 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1305849001093 dimer interface [polypeptide binding]; other site 1305849001094 substrate binding site [chemical binding]; other site 1305849001095 catalytic residues [active] 1305849001096 PemK-like protein; Region: PemK; pfam02452 1305849001097 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 1305849001098 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1305849001099 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1305849001100 putative NAD(P) binding site [chemical binding]; other site 1305849001101 Predicted membrane protein [Function unknown]; Region: COG1511 1305849001102 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1305849001103 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 1305849001104 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1305849001105 Amino acid permease; Region: AA_permease_2; pfam13520 1305849001106 K+ potassium transporter; Region: K_trans; cl15781 1305849001107 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1305849001108 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 1305849001109 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 1305849001110 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 1305849001111 dimer interface [polypeptide binding]; other site 1305849001112 conserved gate region; other site 1305849001113 putative PBP binding loops; other site 1305849001114 ABC-ATPase subunit interface; other site 1305849001115 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1305849001116 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 1305849001117 dimer interface [polypeptide binding]; other site 1305849001118 conserved gate region; other site 1305849001119 putative PBP binding loops; other site 1305849001120 ABC-ATPase subunit interface; other site 1305849001121 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1305849001122 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 1305849001123 Walker A/P-loop; other site 1305849001124 ATP binding site [chemical binding]; other site 1305849001125 Q-loop/lid; other site 1305849001126 ABC transporter signature motif; other site 1305849001127 Walker B; other site 1305849001128 D-loop; other site 1305849001129 H-loop/switch region; other site 1305849001130 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 1305849001131 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1305849001132 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1305849001133 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1305849001134 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1305849001135 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849001136 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1305849001137 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1305849001138 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1305849001139 Protein of unknown function (DUF975); Region: DUF975; cl10504 1305849001140 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1305849001141 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1305849001142 Preprotein translocase subunit; Region: YajC; cl00806 1305849001143 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1305849001144 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1305849001145 putative catalytic cysteine [active] 1305849001146 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1305849001147 putative active site [active] 1305849001148 metal binding site [ion binding]; metal-binding site 1305849001149 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 1305849001150 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1305849001151 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1305849001152 DctM-like transporters; Region: DctM; pfam06808 1305849001153 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1305849001154 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1305849001155 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1305849001156 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1305849001157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849001158 Helix-turn-helix domain; Region: HTH_18; pfam12833 1305849001159 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1305849001160 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1305849001161 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849001162 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 1305849001163 N- and C-terminal domain interface [polypeptide binding]; other site 1305849001164 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 1305849001165 active site 1305849001166 putative catalytic site [active] 1305849001167 metal binding site [ion binding]; metal-binding site 1305849001168 ATP binding site [chemical binding]; other site 1305849001169 carbohydrate binding site [chemical binding]; other site 1305849001170 L-rhamnose isomerase; Provisional; Region: PRK01076 1305849001171 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1305849001172 intersubunit interface [polypeptide binding]; other site 1305849001173 active site 1305849001174 Zn2+ binding site [ion binding]; other site 1305849001175 Domain of unknown function (DUF718); Region: DUF718; cl01281 1305849001176 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1305849001177 dimer interface [polypeptide binding]; other site 1305849001178 active site 1305849001179 metal binding site [ion binding]; metal-binding site 1305849001180 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1305849001181 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1305849001182 Bacterial transcriptional regulator; Region: IclR; pfam01614 1305849001183 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1305849001184 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1305849001185 active site 1305849001186 intersubunit interface [polypeptide binding]; other site 1305849001187 catalytic residue [active] 1305849001188 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 1305849001189 substrate binding site [chemical binding]; other site 1305849001190 ATP binding site [chemical binding]; other site 1305849001191 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 1305849001192 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 1305849001193 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1305849001194 NADP binding site [chemical binding]; other site 1305849001195 homodimer interface [polypeptide binding]; other site 1305849001196 active site 1305849001197 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1305849001198 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 1305849001199 homotetramer interface [polypeptide binding]; other site 1305849001200 FMN binding site [chemical binding]; other site 1305849001201 homodimer contacts [polypeptide binding]; other site 1305849001202 putative active site [active] 1305849001203 putative substrate binding site [chemical binding]; other site 1305849001204 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 1305849001205 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1305849001206 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1305849001207 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 1305849001208 diphosphomevalonate decarboxylase; Region: PLN02407 1305849001209 mevalonate kinase; Region: mevalon_kin; TIGR00549 1305849001210 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1305849001211 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1305849001212 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1305849001213 Substrate-binding site [chemical binding]; other site 1305849001214 Substrate specificity [chemical binding]; other site 1305849001215 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1305849001216 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1305849001217 Cl binding site [ion binding]; other site 1305849001218 oligomer interface [polypeptide binding]; other site 1305849001219 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1305849001220 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1305849001221 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1305849001222 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1305849001223 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1305849001224 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1305849001225 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1305849001226 23S rRNA binding site [nucleotide binding]; other site 1305849001227 L21 binding site [polypeptide binding]; other site 1305849001228 L13 binding site [polypeptide binding]; other site 1305849001229 Citrate transporter; Region: CitMHS; pfam03600 1305849001230 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1305849001231 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1305849001232 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1305849001233 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849001234 DNA-binding site [nucleotide binding]; DNA binding site 1305849001235 FCD domain; Region: FCD; pfam07729 1305849001236 NosL; Region: NosL; cl01769 1305849001237 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 1305849001238 active site 1305849001239 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 1305849001240 putative substrate binding site [chemical binding]; other site 1305849001241 putative ATP binding site [chemical binding]; other site 1305849001242 dipeptidase PepV; Reviewed; Region: PRK07318 1305849001243 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1305849001244 active site 1305849001245 metal binding site [ion binding]; metal-binding site 1305849001246 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 1305849001247 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1305849001248 Ligand binding site; other site 1305849001249 Putative Catalytic site; other site 1305849001250 DXD motif; other site 1305849001251 Predicted small secreted protein [Function unknown]; Region: COG5584 1305849001252 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1305849001253 oligomer interface [polypeptide binding]; other site 1305849001254 active site 1305849001255 metal binding site [ion binding]; metal-binding site 1305849001256 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 1305849001257 catalytic residues [active] 1305849001258 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 1305849001259 Ligand Binding Site [chemical binding]; other site 1305849001260 Domain of unknown function (DUF4479); Region: DUF4479; pfam14794 1305849001261 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 1305849001262 putative tRNA-binding site [nucleotide binding]; other site 1305849001263 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 1305849001264 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1305849001265 PDZ domain of trypsin-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 1305849001266 protein binding site [polypeptide binding]; other site 1305849001267 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1305849001268 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1305849001269 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1305849001270 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1305849001271 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1305849001272 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1305849001273 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849001274 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 1305849001275 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1305849001276 metal-binding site [ion binding] 1305849001277 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1305849001278 dinuclear metal binding motif [ion binding]; other site 1305849001279 Sulfatase; Region: Sulfatase; pfam00884 1305849001280 serine/threonine transporter SstT; Provisional; Region: PRK13628 1305849001281 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1305849001282 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1305849001283 dimerization interface 3.5A [polypeptide binding]; other site 1305849001284 active site 1305849001285 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1305849001286 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1305849001287 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1305849001288 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1305849001289 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1305849001290 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 1305849001291 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 1305849001292 active site 1305849001293 catalytic tetrad [active] 1305849001294 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1305849001295 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849001296 DNA-binding site [nucleotide binding]; DNA binding site 1305849001297 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1305849001298 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1305849001299 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1305849001300 beta-galactosidase; Region: BGL; TIGR03356 1305849001301 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 1305849001302 active site 1305849001303 P-loop; other site 1305849001304 phosphorylation site [posttranslational modification] 1305849001305 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 1305849001306 active site 1305849001307 methionine cluster; other site 1305849001308 phosphorylation site [posttranslational modification] 1305849001309 metal binding site [ion binding]; metal-binding site 1305849001310 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1305849001311 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849001312 Coenzyme A binding pocket [chemical binding]; other site 1305849001313 YrhK-like protein; Region: YrhK; pfam14145 1305849001314 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1305849001315 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1305849001316 NAD binding site [chemical binding]; other site 1305849001317 catalytic Zn binding site [ion binding]; other site 1305849001318 structural Zn binding site [ion binding]; other site 1305849001319 myosin-cross-reactive antigen; Provisional; Region: PRK13977 1305849001320 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; pfam06100 1305849001321 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 1305849001322 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 1305849001323 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 1305849001324 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 1305849001325 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1305849001326 catalytic residue [active] 1305849001327 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1305849001328 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1305849001329 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1305849001330 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1305849001331 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849001332 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1305849001333 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1305849001334 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1305849001335 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1305849001336 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 1305849001337 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1305849001338 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849001339 YjbR; Region: YjbR; cl15265 1305849001340 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1305849001341 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1305849001342 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 1305849001343 dimerization interface [polypeptide binding]; other site 1305849001344 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1305849001345 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1305849001346 Coenzyme A transferase; Region: CoA_trans; cl17247 1305849001347 malonate decarboxylase acyl carrier protein; Region: malonate_delta; TIGR03130 1305849001348 malonate decarboxylase, beta subunit; Region: malonate_beta; TIGR03133 1305849001349 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 1305849001350 malonate decarboxylase holo-[acyl-carrier-protein] synthase; Region: malonate_mdcG; TIGR03135 1305849001351 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1305849001352 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 1305849001353 Tim44-like domain; Region: Tim44; cl09208 1305849001354 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1305849001355 PRD domain; Region: PRD; pfam00874 1305849001356 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 1305849001357 active site 1305849001358 P-loop; other site 1305849001359 phosphorylation site [posttranslational modification] 1305849001360 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 1305849001361 active site 1305849001362 phosphorylation site [posttranslational modification] 1305849001363 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 1305849001364 active site 1305849001365 P-loop; other site 1305849001366 phosphorylation site [posttranslational modification] 1305849001367 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1305849001368 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 1305849001369 intersubunit interface [polypeptide binding]; other site 1305849001370 active site 1305849001371 zinc binding site [ion binding]; other site 1305849001372 Na+ binding site [ion binding]; other site 1305849001373 Zeta toxin; Region: Zeta_toxin; pfam06414 1305849001374 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 1305849001375 Walker A motif; other site 1305849001376 ATP binding site [chemical binding]; other site 1305849001377 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 1305849001378 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 1305849001379 nudix motif; other site 1305849001380 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1305849001381 MarR family; Region: MarR; pfam01047 1305849001382 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1305849001383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849001384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1305849001385 Coenzyme A binding pocket [chemical binding]; other site 1305849001386 B3/4 domain; Region: B3_4; cl19243 1305849001387 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 1305849001388 active site 1305849001389 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1305849001390 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1305849001391 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 1305849001392 Ca binding site [ion binding]; other site 1305849001393 active site 1305849001394 catalytic site [active] 1305849001395 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1305849001396 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1305849001397 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1305849001398 HTH domain; Region: HTH_11; pfam08279 1305849001399 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1305849001400 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 1305849001401 active site turn [active] 1305849001402 phosphorylation site [posttranslational modification] 1305849001403 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1305849001404 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 1305849001405 HPr interaction site; other site 1305849001406 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1305849001407 active site 1305849001408 phosphorylation site [posttranslational modification] 1305849001409 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 1305849001410 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1305849001411 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1305849001412 MarR family; Region: MarR; pfam01047 1305849001413 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 1305849001414 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1305849001415 putative active site [active] 1305849001416 putative FMN binding site [chemical binding]; other site 1305849001417 putative substrate binding site [chemical binding]; other site 1305849001418 putative catalytic residue [active] 1305849001419 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1305849001420 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1305849001421 potential catalytic triad [active] 1305849001422 conserved cys residue [active] 1305849001423 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1305849001424 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849001425 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1305849001426 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849001427 glycerol kinase; Provisional; Region: glpK; PRK00047 1305849001428 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1305849001429 N- and C-terminal domain interface [polypeptide binding]; other site 1305849001430 active site 1305849001431 MgATP binding site [chemical binding]; other site 1305849001432 catalytic site [active] 1305849001433 metal binding site [ion binding]; metal-binding site 1305849001434 glycerol binding site [chemical binding]; other site 1305849001435 homotetramer interface [polypeptide binding]; other site 1305849001436 homodimer interface [polypeptide binding]; other site 1305849001437 FBP binding site [chemical binding]; other site 1305849001438 protein IIAGlc interface [polypeptide binding]; other site 1305849001439 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1305849001440 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849001441 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1305849001442 amphipathic channel; other site 1305849001443 Asn-Pro-Ala signature motifs; other site 1305849001444 MutS domain III; Region: MutS_III; pfam05192 1305849001445 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849001446 Walker A/P-loop; other site 1305849001447 ATP binding site [chemical binding]; other site 1305849001448 Q-loop/lid; other site 1305849001449 ABC transporter signature motif; other site 1305849001450 Walker B; other site 1305849001451 D-loop; other site 1305849001452 H-loop/switch region; other site 1305849001453 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1305849001454 DsrE/DsrF-like family; Region: DrsE; cl00672 1305849001455 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 1305849001456 putative homodimer interface [polypeptide binding]; other site 1305849001457 putative homotetramer interface [polypeptide binding]; other site 1305849001458 putative metal binding site [ion binding]; other site 1305849001459 putative homodimer-homodimer interface [polypeptide binding]; other site 1305849001460 putative allosteric switch controlling residues; other site 1305849001461 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 1305849001462 active site residue [active] 1305849001463 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849001464 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1305849001465 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849001466 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 1305849001467 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 1305849001468 active site residue [active] 1305849001469 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1305849001470 Part of AAA domain; Region: AAA_19; pfam13245 1305849001471 N-glycosyltransferase; Provisional; Region: PRK11204 1305849001472 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1305849001473 DXD motif; other site 1305849001474 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1305849001475 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 1305849001476 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 1305849001477 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 1305849001478 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 1305849001479 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1305849001480 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1305849001481 ligand binding site [chemical binding]; other site 1305849001482 flexible hinge region; other site 1305849001483 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 1305849001484 putative switch regulator; other site 1305849001485 non-specific DNA interactions [nucleotide binding]; other site 1305849001486 DNA binding site [nucleotide binding] 1305849001487 sequence specific DNA binding site [nucleotide binding]; other site 1305849001488 putative cAMP binding site [chemical binding]; other site 1305849001489 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 1305849001490 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849001491 Walker B; other site 1305849001492 D-loop; other site 1305849001493 H-loop/switch region; other site 1305849001494 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1305849001495 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1305849001496 Walker A/P-loop; other site 1305849001497 ATP binding site [chemical binding]; other site 1305849001498 Q-loop/lid; other site 1305849001499 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1305849001500 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1305849001501 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1305849001502 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 1305849001503 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1305849001504 active site 1305849001505 HIGH motif; other site 1305849001506 dimer interface [polypeptide binding]; other site 1305849001507 KMSKS motif; other site 1305849001508 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 1305849001509 RNA binding surface [nucleotide binding]; other site 1305849001510 tyrosine decarboxylase, Enterococcus type; Region: tyr_de_CO2_Ent; TIGR03811 1305849001511 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1305849001512 catalytic residue [active] 1305849001513 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1305849001514 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1305849001515 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849001516 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849001517 DNA binding site [nucleotide binding] 1305849001518 domain linker motif; other site 1305849001519 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 1305849001520 putative dimerization interface [polypeptide binding]; other site 1305849001521 putative ligand binding site [chemical binding]; other site 1305849001522 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1305849001523 active site 1305849001524 catalytic residues [active] 1305849001525 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1305849001526 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1305849001527 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 1305849001528 motif II; other site 1305849001529 maltose phosphorylase; Provisional; Region: PRK13807 1305849001530 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1305849001531 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1305849001532 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1305849001533 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1305849001534 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 1305849001535 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 1305849001536 active site turn [active] 1305849001537 phosphorylation site [posttranslational modification] 1305849001538 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1305849001539 HPr interaction site; other site 1305849001540 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1305849001541 active site 1305849001542 phosphorylation site [posttranslational modification] 1305849001543 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 1305849001544 putative catalytic site [active] 1305849001545 putative metal binding site [ion binding]; other site 1305849001546 putative phosphate binding site [ion binding]; other site 1305849001547 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 1305849001548 active site 1305849001549 catalytic site [active] 1305849001550 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849001551 Coenzyme A binding pocket [chemical binding]; other site 1305849001552 Phenolic Acid Decarboxylase; Region: PAD; cd14241 1305849001553 active site 1305849001554 dimer interface [polypeptide binding]; other site 1305849001555 Predicted transcriptional regulators [Transcription]; Region: COG1695 1305849001556 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1305849001557 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1305849001558 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1305849001559 DNA binding residues [nucleotide binding] 1305849001560 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1305849001561 putative dimer interface [polypeptide binding]; other site 1305849001562 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 1305849001563 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1305849001564 putative substrate translocation pore; other site 1305849001565 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 1305849001566 Urea transporter; Region: UT; cl01829 1305849001567 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1305849001568 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 1305849001569 Archaeal flavoproteins [Energy production and conversion]; Region: COG1036 1305849001570 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1305849001571 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 1305849001572 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1305849001573 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1305849001574 Walker A/P-loop; other site 1305849001575 ATP binding site [chemical binding]; other site 1305849001576 Q-loop/lid; other site 1305849001577 ABC transporter signature motif; other site 1305849001578 Walker B; other site 1305849001579 D-loop; other site 1305849001580 H-loop/switch region; other site 1305849001581 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1305849001582 FtsX-like permease family; Region: FtsX; pfam02687 1305849001583 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1305849001584 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 1305849001585 active site 1305849001586 phosphorylation site [posttranslational modification] 1305849001587 intermolecular recognition site; other site 1305849001588 dimerization interface [polypeptide binding]; other site 1305849001589 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 1305849001590 DNA binding site [nucleotide binding] 1305849001591 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1305849001592 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 1305849001593 dimerization interface [polypeptide binding]; other site 1305849001594 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 1305849001595 dimer interface [polypeptide binding]; other site 1305849001596 phosphorylation site [posttranslational modification] 1305849001597 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 1305849001598 ATP binding site [chemical binding]; other site 1305849001599 Mg2+ binding site [ion binding]; other site 1305849001600 G-X-G motif; other site 1305849001601 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1305849001602 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1305849001603 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 1305849001604 dimerization interface [polypeptide binding]; other site 1305849001605 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1305849001606 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 1305849001607 dimerization interface [polypeptide binding]; other site 1305849001608 putative Zn2+ binding site [ion binding]; other site 1305849001609 putative DNA binding site [nucleotide binding]; other site 1305849001610 Predicted membrane protein [Function unknown]; Region: COG4709 1305849001611 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1305849001612 Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like_u2; cd03402 1305849001613 prohibitin homologues; Region: PHB; smart00244 1305849001614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 1305849001615 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1305849001616 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1305849001617 Walker A/P-loop; other site 1305849001618 ATP binding site [chemical binding]; other site 1305849001619 Q-loop/lid; other site 1305849001620 ABC transporter signature motif; other site 1305849001621 Walker B; other site 1305849001622 D-loop; other site 1305849001623 H-loop/switch region; other site 1305849001624 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1305849001625 FtsX-like permease family; Region: FtsX; pfam02687 1305849001626 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1305849001627 active site 1305849001628 catalytic residues [active] 1305849001629 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1305849001630 NlpC/P60 family; Region: NLPC_P60; pfam00877 1305849001631 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1305849001632 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; cl00164 1305849001633 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1305849001634 active site turn [active] 1305849001635 phosphorylation site [posttranslational modification] 1305849001636 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1305849001637 D-ribose pyranase; Provisional; Region: PRK11797 1305849001638 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1305849001639 substrate binding site [chemical binding]; other site 1305849001640 dimer interface [polypeptide binding]; other site 1305849001641 ATP binding site [chemical binding]; other site 1305849001642 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849001643 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849001644 DNA binding site [nucleotide binding] 1305849001645 domain linker motif; other site 1305849001646 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1305849001647 dimerization interface [polypeptide binding]; other site 1305849001648 ligand binding site [chemical binding]; other site 1305849001649 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 1305849001650 catalytic triad [active] 1305849001651 conserved cis-peptide bond; other site 1305849001652 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1305849001653 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1305849001654 Walker A/P-loop; other site 1305849001655 ATP binding site [chemical binding]; other site 1305849001656 Q-loop/lid; other site 1305849001657 ABC transporter signature motif; other site 1305849001658 Walker B; other site 1305849001659 D-loop; other site 1305849001660 H-loop/switch region; other site 1305849001661 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1305849001662 Bacterial type III secretion protein (HrpB7); Region: HrpB7; cl09720 1305849001663 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 1305849001664 FtsX-like permease family; Region: FtsX; pfam02687 1305849001665 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1305849001666 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1305849001667 FtsX-like permease family; Region: FtsX; pfam02687 1305849001668 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1305849001669 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 1305849001670 Ca binding site [ion binding]; other site 1305849001671 active site 1305849001672 catalytic site [active] 1305849001673 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1305849001674 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1305849001675 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1305849001676 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 1305849001677 metal binding site [ion binding]; metal-binding site 1305849001678 YodA lipocalin-like domain; Region: YodA; pfam09223 1305849001679 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1305849001680 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 1305849001681 active site 1305849001682 phosphorylation site [posttranslational modification] 1305849001683 intermolecular recognition site; other site 1305849001684 LytTr DNA-binding domain; Region: LytTR; pfam04397 1305849001685 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 1305849001686 ATP binding site [chemical binding]; other site 1305849001687 Mg2+ binding site [ion binding]; other site 1305849001688 G-X-G motif; other site 1305849001689 Accessory gene regulator B; Region: AgrB; pfam04647 1305849001690 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1305849001691 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1305849001692 Substrate-binding site [chemical binding]; other site 1305849001693 Substrate specificity [chemical binding]; other site 1305849001694 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1305849001695 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1305849001696 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1305849001697 Part of AAA domain; Region: AAA_19; pfam13245 1305849001698 Family description; Region: UvrD_C_2; pfam13538 1305849001699 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 1305849001700 putative catalytic residues [active] 1305849001701 thiol/disulfide switch; other site 1305849001702 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 1305849001703 putative catalytic residues [active] 1305849001704 thiol/disulfide switch; other site 1305849001705 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 1305849001706 catalytic residues [active] 1305849001707 dimer interface [polypeptide binding]; other site 1305849001708 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1305849001709 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 1305849001710 homodimer interface [polypeptide binding]; other site 1305849001711 substrate-cofactor binding pocket; other site 1305849001712 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849001713 catalytic residue [active] 1305849001714 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1305849001715 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 1305849001716 dimer interface [polypeptide binding]; other site 1305849001717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849001718 catalytic residue [active] 1305849001719 elongation factor P; Validated; Region: PRK00529 1305849001720 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1305849001721 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 1305849001722 RNA binding site [nucleotide binding]; other site 1305849001723 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 1305849001724 RNA binding site [nucleotide binding]; other site 1305849001725 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1305849001726 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1305849001727 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1305849001728 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1305849001729 active site 1305849001730 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1305849001731 substrate binding site [chemical binding]; other site 1305849001732 catalytic residues [active] 1305849001733 dimer interface [polypeptide binding]; other site 1305849001734 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1305849001735 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 1305849001736 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 1305849001737 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1305849001738 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1305849001739 dimer interface [polypeptide binding]; other site 1305849001740 active site 1305849001741 catalytic residue [active] 1305849001742 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1305849001743 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1305849001744 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1305849001745 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1305849001746 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1305849001747 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1305849001748 putative trimer interface [polypeptide binding]; other site 1305849001749 putative CoA binding site [chemical binding]; other site 1305849001750 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1305849001751 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 1305849001752 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 1305849001753 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 1305849001754 aspartate kinase; Reviewed; Region: PRK09034 1305849001755 putative catalytic residues [active] 1305849001756 putative nucleotide binding site [chemical binding]; other site 1305849001757 putative aspartate binding site [chemical binding]; other site 1305849001758 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 1305849001759 allosteric regulatory residue; other site 1305849001760 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 1305849001761 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1305849001762 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1305849001763 metal binding site [ion binding]; metal-binding site 1305849001764 dimer interface [polypeptide binding]; other site 1305849001765 aromatic amino acid aminotransferase; Validated; Region: PRK07309 1305849001766 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 1305849001767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849001768 homodimer interface [polypeptide binding]; other site 1305849001769 catalytic residue [active] 1305849001770 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1305849001771 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849001772 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849001773 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 1305849001774 Integrase core domain; Region: rve; pfam00665 1305849001775 Integrase core domain; Region: rve_2; pfam13333 1305849001776 Predicted membrane protein [Function unknown]; Region: COG2323 1305849001777 DNA polymerase IV; Reviewed; Region: PRK03103 1305849001778 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1305849001779 active site 1305849001780 DNA binding site [nucleotide binding] 1305849001781 galactokinase; Provisional; Region: PRK05322 1305849001782 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1305849001783 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1305849001784 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1305849001785 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1305849001786 active site 1305849001787 catalytic residues [active] 1305849001788 putative symporter YagG; Provisional; Region: PRK09669; cl15392 1305849001789 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1305849001790 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1305849001791 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849001792 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1305849001793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849001794 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1305849001795 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1305849001796 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1305849001797 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1305849001798 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1305849001799 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 1305849001800 ABC-ATPase subunit interface; other site 1305849001801 dimer interface [polypeptide binding]; other site 1305849001802 putative PBP binding regions; other site 1305849001803 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1305849001804 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 1305849001805 metal binding site [ion binding]; metal-binding site 1305849001806 epoxyqueuosine reductase; Region: TIGR00276 1305849001807 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1305849001808 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1305849001809 HEAT-like repeat; Region: HEAT_EZ; pfam13513 1305849001810 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1305849001811 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 1305849001812 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849001813 FAD dependent oxidoreductase; Region: DAO; pfam01266 1305849001814 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 1305849001815 putative substrate translocation pore; other site 1305849001816 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1305849001817 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1305849001818 Arginine repressor [Transcription]; Region: ArgR; COG1438 1305849001819 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1305849001820 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1305849001821 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1305849001822 active site 1305849001823 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1305849001824 substrate binding site [chemical binding]; other site 1305849001825 metal binding site [ion binding]; metal-binding site 1305849001826 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1305849001827 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1305849001828 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849001829 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1305849001830 Isochorismatase family; Region: Isochorismatase; pfam00857 1305849001831 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 1305849001832 catalytic triad [active] 1305849001833 conserved cis-peptide bond; other site 1305849001834 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1305849001835 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1305849001836 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1305849001837 Flavin Reductases; Region: FlaRed; cl00801 1305849001838 PemK-like protein; Region: PemK; pfam02452 1305849001839 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1305849001840 dimanganese center [ion binding]; other site 1305849001841 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1305849001842 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1305849001843 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1305849001844 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 1305849001845 dimer interface [polypeptide binding]; other site 1305849001846 conserved gate region; other site 1305849001847 putative PBP binding loops; other site 1305849001848 ABC-ATPase subunit interface; other site 1305849001849 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1305849001850 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 1305849001851 dimer interface [polypeptide binding]; other site 1305849001852 conserved gate region; other site 1305849001853 putative PBP binding loops; other site 1305849001854 ABC-ATPase subunit interface; other site 1305849001855 Protein of unknown function, DUF624; Region: DUF624; pfam04854 1305849001856 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 1305849001857 active site 1305849001858 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1305849001859 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 1305849001860 metal ion-dependent adhesion site (MIDAS); other site 1305849001861 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1305849001862 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849001863 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1305849001864 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 1305849001865 active site 1305849001866 catalytic site [active] 1305849001867 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1305849001868 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 1305849001869 active site 1305849001870 phosphorylation site [posttranslational modification] 1305849001871 intermolecular recognition site; other site 1305849001872 dimerization interface [polypeptide binding]; other site 1305849001873 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 1305849001874 DNA binding site [nucleotide binding] 1305849001875 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1305849001876 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 1305849001877 dimer interface [polypeptide binding]; other site 1305849001878 phosphorylation site [posttranslational modification] 1305849001879 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 1305849001880 ATP binding site [chemical binding]; other site 1305849001881 Mg2+ binding site [ion binding]; other site 1305849001882 G-X-G motif; other site 1305849001883 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1305849001884 amino acid transporter; Region: 2A0306; TIGR00909 1305849001885 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1305849001886 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 1305849001887 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; pfam10112 1305849001888 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 1305849001889 dimer interface [polypeptide binding]; other site 1305849001890 ADP-ribose binding site [chemical binding]; other site 1305849001891 active site 1305849001892 nudix motif; other site 1305849001893 metal binding site [ion binding]; metal-binding site 1305849001894 Protein of unknown function (DUF1068); Region: DUF1068; pfam06364 1305849001895 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1305849001896 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1305849001897 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 1305849001898 catalytic triad [active] 1305849001899 conserved cis-peptide bond; other site 1305849001900 Right handed beta helix region; Region: Beta_helix; pfam13229 1305849001901 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1305849001902 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1305849001903 active site 1305849001904 Zn binding site [ion binding]; other site 1305849001905 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1305849001906 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 1305849001907 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1305849001908 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1305849001909 active site 1305849001910 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1305849001911 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1305849001912 catalytic residue [active] 1305849001913 Putative amino acid metabolism; Region: DUF1831; pfam08866 1305849001914 H+ Antiporter protein; Region: 2A0121; TIGR00900 1305849001915 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 1305849001916 putative substrate translocation pore; other site 1305849001917 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 1305849001918 putative active site [active] 1305849001919 putative metal binding site [ion binding]; other site 1305849001920 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1305849001921 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 1305849001922 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1305849001923 transaminase; Validated; Region: PRK07324 1305849001924 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 1305849001925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849001926 homodimer interface [polypeptide binding]; other site 1305849001927 catalytic residue [active] 1305849001928 drug efflux system protein MdtG; Provisional; Region: PRK09874 1305849001929 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 1305849001930 putative substrate translocation pore; other site 1305849001931 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1305849001932 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1305849001933 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 1305849001934 WHG domain; Region: WHG; pfam13305 1305849001935 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 1305849001936 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1305849001937 DNA topoisomerase III; Provisional; Region: PRK07726 1305849001938 active site 1305849001939 putative metal-binding site [ion binding]; other site 1305849001940 putative interdomain interaction site [polypeptide binding]; other site 1305849001941 putative nucleotide binding site [chemical binding]; other site 1305849001942 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 1305849001943 domain I; other site 1305849001944 DNA binding groove [nucleotide binding] 1305849001945 phosphate binding site [ion binding]; other site 1305849001946 domain II; other site 1305849001947 domain III; other site 1305849001948 nucleotide binding site [chemical binding]; other site 1305849001949 catalytic site [active] 1305849001950 domain IV; other site 1305849001951 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1305849001952 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1305849001953 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1305849001954 Ligand binding site; other site 1305849001955 Putative Catalytic site; other site 1305849001956 DXD motif; other site 1305849001957 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1305849001958 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1305849001959 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 1305849001960 DNA binding site [nucleotide binding] 1305849001961 active site 1305849001962 Predicted membrane protein [Function unknown]; Region: COG2855 1305849001963 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 1305849001964 gating phenylalanine in ion channel; other site 1305849001965 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1305849001966 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1305849001967 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1305849001968 dimerization interface [polypeptide binding]; other site 1305849001969 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1305849001970 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 1305849001971 putative ArsC-like catalytic residues; other site 1305849001972 putative TRX-like catalytic residues [active] 1305849001973 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1305849001974 lipoyl attachment site [posttranslational modification]; other site 1305849001975 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1305849001976 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1305849001977 Walker A/P-loop; other site 1305849001978 ATP binding site [chemical binding]; other site 1305849001979 Q-loop/lid; other site 1305849001980 ABC transporter signature motif; other site 1305849001981 Walker B; other site 1305849001982 D-loop; other site 1305849001983 H-loop/switch region; other site 1305849001984 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1305849001985 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 1305849001986 conserved gate region; other site 1305849001987 ABC-ATPase subunit interface; other site 1305849001988 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1305849001989 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1305849001990 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1305849001991 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1305849001992 Walker A/P-loop; other site 1305849001993 ATP binding site [chemical binding]; other site 1305849001994 Q-loop/lid; other site 1305849001995 ABC transporter signature motif; other site 1305849001996 Walker B; other site 1305849001997 D-loop; other site 1305849001998 H-loop/switch region; other site 1305849001999 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1305849002000 FeS assembly protein SufD; Region: sufD; TIGR01981 1305849002001 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 1305849002002 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1305849002003 catalytic residue [active] 1305849002004 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1305849002005 trimerization site [polypeptide binding]; other site 1305849002006 active site 1305849002007 FeS assembly protein SufB; Region: sufB; TIGR01980 1305849002008 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1305849002009 AP2-like DNA-binding integrase domain; Region: Integrase_AP2; pfam14657 1305849002010 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1305849002011 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 1305849002012 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 1305849002013 Int/Topo IB signature motif; other site 1305849002014 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 1305849002015 non-specific DNA binding site [nucleotide binding]; other site 1305849002016 salt bridge; other site 1305849002017 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002018 Helix-turn-helix domain; Region: HTH_17; pfam12728 1305849002019 CHC2 zinc finger; Region: zf-CHC2; cl17510 1305849002020 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 1305849002021 non-specific DNA binding site [nucleotide binding]; other site 1305849002022 salt bridge; other site 1305849002023 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002024 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1305849002025 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 1305849002026 non-specific DNA binding site [nucleotide binding]; other site 1305849002027 salt bridge; other site 1305849002028 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002029 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1305849002030 Double zinc ribbon; Region: DZR; pfam12773 1305849002031 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1305849002032 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 1305849002033 active site turn [active] 1305849002034 phosphorylation site [posttranslational modification] 1305849002035 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1305849002036 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1305849002037 HPr interaction site; other site 1305849002038 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1305849002039 active site 1305849002040 phosphorylation site [posttranslational modification] 1305849002041 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1305849002042 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1305849002043 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1305849002044 CAT RNA binding domain; Region: CAT_RBD; smart01061 1305849002045 PRD domain; Region: PRD; pfam00874 1305849002046 PRD domain; Region: PRD; pfam00874 1305849002047 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1305849002048 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1305849002049 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1305849002050 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1305849002051 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1305849002052 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1305849002053 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1305849002054 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1305849002055 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 1305849002056 ATP binding site [chemical binding]; other site 1305849002057 putative Mg++ binding site [ion binding]; other site 1305849002058 Transposase domain (DUF772); Region: DUF772; pfam05598 1305849002059 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1305849002060 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1305849002061 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1305849002062 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 1305849002063 non-specific DNA binding site [nucleotide binding]; other site 1305849002064 salt bridge; other site 1305849002065 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002066 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 1305849002067 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 1305849002068 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849002069 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1305849002070 Walker A/P-loop; other site 1305849002071 ATP binding site [chemical binding]; other site 1305849002072 Q-loop/lid; other site 1305849002073 ABC transporter signature motif; other site 1305849002074 Walker B; other site 1305849002075 D-loop; other site 1305849002076 H-loop/switch region; other site 1305849002077 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 1305849002078 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 1305849002079 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1305849002080 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 1305849002081 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 1305849002082 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1305849002083 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 1305849002084 Walker A motif; other site 1305849002085 ATP binding site [chemical binding]; other site 1305849002086 Walker B motif; other site 1305849002087 arginine finger; other site 1305849002088 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 1305849002089 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 1305849002090 non-specific DNA binding site [nucleotide binding]; other site 1305849002091 salt bridge; other site 1305849002092 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002093 Replication initiation factor; Region: Rep_trans; pfam02486 1305849002094 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 1305849002095 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1305849002096 putative active site [active] 1305849002097 putative NTP binding site [chemical binding]; other site 1305849002098 putative nucleic acid binding site [nucleotide binding]; other site 1305849002099 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1305849002100 active site 1305849002101 Antirestriction protein (ArdA); Region: ArdA; pfam07275 1305849002102 TcpE family; Region: TcpE; pfam12648 1305849002103 AAA-like domain; Region: AAA_10; pfam12846 1305849002104 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 1305849002105 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1305849002106 putative active site [active] 1305849002107 putative NTP binding site [chemical binding]; other site 1305849002108 putative nucleic acid binding site [nucleotide binding]; other site 1305849002109 AAA-like domain; Region: AAA_10; pfam12846 1305849002110 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 1305849002111 Haemolysin-III related; Region: HlyIII; cl03831 1305849002112 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 1305849002113 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1305849002114 catalytic residue [active] 1305849002115 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1305849002116 NlpC/P60 family; Region: NLPC_P60; pfam00877 1305849002117 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 1305849002118 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1305849002119 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 1305849002120 G1 box; other site 1305849002121 putative GEF interaction site [polypeptide binding]; other site 1305849002122 GTP/Mg2+ binding site [chemical binding]; other site 1305849002123 Switch I region; other site 1305849002124 G2 box; other site 1305849002125 G3 box; other site 1305849002126 Switch II region; other site 1305849002127 G4 box; other site 1305849002128 G5 box; other site 1305849002129 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 1305849002130 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 1305849002131 Elongation Factor G, domain II; Region: EFG_II; pfam14492 1305849002132 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 1305849002133 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 1305849002134 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 1305849002135 non-specific DNA binding site [nucleotide binding]; other site 1305849002136 salt bridge; other site 1305849002137 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002138 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1305849002139 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 1305849002140 DNA binding residues [nucleotide binding] 1305849002141 Helix-turn-helix domain; Region: HTH_16; pfam12645 1305849002142 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 1305849002143 DNA binding domain of tn916 integrase; Region: Integrase_DNA; pfam02920 1305849002144 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 1305849002145 Int/Topo IB signature motif; other site 1305849002146 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 1305849002147 homodimer interface [polypeptide binding]; other site 1305849002148 chemical substrate binding site [chemical binding]; other site 1305849002149 oligomer interface [polypeptide binding]; other site 1305849002150 metal binding site [ion binding]; metal-binding site 1305849002151 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 1305849002152 active site 1305849002153 catalytic site [active] 1305849002154 CAT RNA binding domain; Region: CAT_RBD; smart01061 1305849002155 PRD domain; Region: PRD; pfam00874 1305849002156 PRD domain; Region: PRD; pfam00874 1305849002157 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1305849002158 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 1305849002159 active site turn [active] 1305849002160 phosphorylation site [posttranslational modification] 1305849002161 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1305849002162 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 1305849002163 HPr interaction site; other site 1305849002164 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1305849002165 active site 1305849002166 phosphorylation site [posttranslational modification] 1305849002167 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 1305849002168 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1305849002169 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1305849002170 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849002171 DNA-binding site [nucleotide binding]; DNA binding site 1305849002172 UTRA domain; Region: UTRA; pfam07702 1305849002173 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1305849002174 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 1305849002175 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 1305849002176 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1305849002177 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1305849002178 Substrate-binding site [chemical binding]; other site 1305849002179 Substrate specificity [chemical binding]; other site 1305849002180 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849002181 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849002182 DNA binding site [nucleotide binding] 1305849002183 domain linker motif; other site 1305849002184 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1305849002185 ligand binding site [chemical binding]; other site 1305849002186 dimerization interface [polypeptide binding]; other site 1305849002187 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1305849002188 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1305849002189 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1305849002190 Sulfatase; Region: Sulfatase; pfam00884 1305849002191 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 1305849002192 non-specific DNA binding site [nucleotide binding]; other site 1305849002193 salt bridge; other site 1305849002194 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002195 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1305849002196 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 1305849002197 active site 1305849002198 multimer interface [polypeptide binding]; other site 1305849002199 magnesium-transporting ATPase; Provisional; Region: PRK15122 1305849002200 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1305849002201 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849002202 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1305849002203 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1305849002204 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1305849002205 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1305849002206 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 1305849002207 motif II; other site 1305849002208 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1305849002209 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1305849002210 Walker A/P-loop; other site 1305849002211 ATP binding site [chemical binding]; other site 1305849002212 Q-loop/lid; other site 1305849002213 ABC transporter signature motif; other site 1305849002214 Walker B; other site 1305849002215 D-loop; other site 1305849002216 H-loop/switch region; other site 1305849002217 NIL domain; Region: NIL; pfam09383 1305849002218 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 1305849002219 dimer interface [polypeptide binding]; other site 1305849002220 conserved gate region; other site 1305849002221 putative PBP binding loops; other site 1305849002222 ABC-ATPase subunit interface; other site 1305849002223 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1305849002224 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 1305849002225 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1305849002226 metal binding site [ion binding]; metal-binding site 1305849002227 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 1305849002228 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1305849002229 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1305849002230 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1305849002231 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1305849002232 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1305849002233 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1305849002234 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1305849002235 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1305849002236 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849002237 ABC transporter; Region: ABC_tran_2; pfam12848 1305849002238 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849002239 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 1305849002240 catalytic core [active] 1305849002241 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1305849002242 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1305849002243 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1305849002244 putative active site [active] 1305849002245 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1305849002246 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 1305849002247 active site turn [active] 1305849002248 phosphorylation site [posttranslational modification] 1305849002249 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1305849002250 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1305849002251 HPr interaction site; other site 1305849002252 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1305849002253 active site 1305849002254 phosphorylation site [posttranslational modification] 1305849002255 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 1305849002256 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1305849002257 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1305849002258 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1305849002259 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849002260 Walker A/P-loop; other site 1305849002261 ATP binding site [chemical binding]; other site 1305849002262 Q-loop/lid; other site 1305849002263 ABC transporter signature motif; other site 1305849002264 Walker B; other site 1305849002265 D-loop; other site 1305849002266 H-loop/switch region; other site 1305849002267 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1305849002268 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1305849002269 Predicted membrane protein [Function unknown]; Region: COG3817 1305849002270 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1305849002271 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 1305849002272 putative substrate binding pocket [chemical binding]; other site 1305849002273 AC domain interface; other site 1305849002274 catalytic triad [active] 1305849002275 AB domain interface; other site 1305849002276 interchain disulfide; other site 1305849002277 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1305849002278 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1305849002279 putative metal binding site [ion binding]; other site 1305849002280 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 1305849002281 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 1305849002282 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1305849002283 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849002284 Coenzyme A binding pocket [chemical binding]; other site 1305849002285 Tubby C 2; Region: Tub_2; cl02043 1305849002286 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 1305849002287 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1305849002288 active site 1305849002289 motif I; other site 1305849002290 motif II; other site 1305849002291 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 1305849002292 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1305849002293 ligand binding site [chemical binding]; other site 1305849002294 active site 1305849002295 UGI interface [polypeptide binding]; other site 1305849002296 catalytic site [active] 1305849002297 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1305849002298 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1305849002299 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1305849002300 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849002301 Coenzyme A binding pocket [chemical binding]; other site 1305849002302 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1305849002303 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 1305849002304 active site 1305849002305 catalytic site [active] 1305849002306 substrate binding site [chemical binding]; other site 1305849002307 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1305849002308 active site 1305849002309 putative catalytic site [active] 1305849002310 DNA binding site [nucleotide binding] 1305849002311 putative phosphate binding site [ion binding]; other site 1305849002312 metal binding site A [ion binding]; metal-binding site 1305849002313 AP binding site [nucleotide binding]; other site 1305849002314 metal binding site B [ion binding]; metal-binding site 1305849002315 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1305849002316 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1305849002317 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1305849002318 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1305849002319 FAD binding domain; Region: FAD_binding_4; pfam01565 1305849002320 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1305849002321 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849002322 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849002323 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849002324 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1305849002325 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1305849002326 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1305849002327 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1305849002328 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849002329 Coenzyme A binding pocket [chemical binding]; other site 1305849002330 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 1305849002331 L-aspartate oxidase; Provisional; Region: PRK06175 1305849002332 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1305849002333 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1305849002334 NAD(P) binding site [chemical binding]; other site 1305849002335 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1305849002336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1305849002337 NAD(P) binding site [chemical binding]; other site 1305849002338 active site 1305849002339 Predicted membrane protein [Function unknown]; Region: COG4684 1305849002340 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 1305849002341 Flavoprotein; Region: Flavoprotein; pfam02441 1305849002342 DNA / pantothenate metabolizm flavoprotein; Region: DFP; cl04410 1305849002343 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1305849002344 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1305849002345 NADP binding site [chemical binding]; other site 1305849002346 dimer interface [polypeptide binding]; other site 1305849002347 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1305849002348 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 1305849002349 non-specific DNA binding site [nucleotide binding]; other site 1305849002350 salt bridge; other site 1305849002351 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002352 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1305849002353 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1305849002354 Walker A/P-loop; other site 1305849002355 ATP binding site [chemical binding]; other site 1305849002356 Q-loop/lid; other site 1305849002357 ABC transporter signature motif; other site 1305849002358 Walker B; other site 1305849002359 D-loop; other site 1305849002360 H-loop/switch region; other site 1305849002361 TOBE domain; Region: TOBE_2; pfam08402 1305849002362 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 1305849002363 dimer interface [polypeptide binding]; other site 1305849002364 conserved gate region; other site 1305849002365 putative PBP binding loops; other site 1305849002366 ABC-ATPase subunit interface; other site 1305849002367 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1305849002368 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 1305849002369 dimer interface [polypeptide binding]; other site 1305849002370 conserved gate region; other site 1305849002371 putative PBP binding loops; other site 1305849002372 ABC-ATPase subunit interface; other site 1305849002373 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1305849002374 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 1305849002375 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1305849002376 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 1305849002377 Walker A motif; other site 1305849002378 ATP binding site [chemical binding]; other site 1305849002379 Walker B motif; other site 1305849002380 arginine finger; other site 1305849002381 Transcriptional antiterminator [Transcription]; Region: COG3933 1305849002382 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 1305849002383 active site 1305849002384 active pocket/dimerization site; other site 1305849002385 phosphorylation site [posttranslational modification] 1305849002386 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 1305849002387 active pocket/dimerization site; other site 1305849002388 active site 1305849002389 phosphorylation site [posttranslational modification] 1305849002390 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1305849002391 active site 1305849002392 phosphorylation site [posttranslational modification] 1305849002393 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1305849002394 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1305849002395 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 1305849002396 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1305849002397 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1305849002398 nucleotide binding site [chemical binding]; other site 1305849002399 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1305849002400 transcriptional repressor DicA; Reviewed; Region: PRK09706 1305849002401 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 1305849002402 non-specific DNA binding site [nucleotide binding]; other site 1305849002403 salt bridge; other site 1305849002404 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002405 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 1305849002406 non-specific DNA binding site [nucleotide binding]; other site 1305849002407 salt bridge; other site 1305849002408 Replication initiation factor; Region: Rep_trans; pfam02486 1305849002409 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 1305849002410 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 1305849002411 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1305849002412 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 1305849002413 Int/Topo IB signature motif; other site 1305849002414 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 1305849002415 substrate binding site [chemical binding]; other site 1305849002416 THF binding site; other site 1305849002417 zinc-binding site [ion binding]; other site 1305849002418 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849002419 Integrase core domain; Region: rve; pfam00665 1305849002420 Integrase core domain; Region: rve_3; cl15866 1305849002421 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1305849002422 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1305849002423 DNA binding residues [nucleotide binding] 1305849002424 putative dimer interface [polypeptide binding]; other site 1305849002425 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1305849002426 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1305849002427 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1305849002428 CTP synthetase; Validated; Region: pyrG; PRK05380 1305849002429 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 1305849002430 Catalytic site [active] 1305849002431 active site 1305849002432 UTP binding site [chemical binding]; other site 1305849002433 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1305849002434 active site 1305849002435 putative oxyanion hole; other site 1305849002436 catalytic triad [active] 1305849002437 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 1305849002438 intersubunit interface [polypeptide binding]; other site 1305849002439 active site 1305849002440 zinc binding site [ion binding]; other site 1305849002441 Na+ binding site [ion binding]; other site 1305849002442 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 1305849002443 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 1305849002444 hinge; other site 1305849002445 active site 1305849002446 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1305849002447 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1305849002448 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1305849002449 RNA binding site [nucleotide binding]; other site 1305849002450 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1305849002451 multimer interface [polypeptide binding]; other site 1305849002452 Walker A motif; other site 1305849002453 ATP binding site [chemical binding]; other site 1305849002454 Walker B motif; other site 1305849002455 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1305849002456 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 1305849002457 active site 1305849002458 phosphorylation site [posttranslational modification] 1305849002459 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1305849002460 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 1305849002461 active site 1305849002462 P-loop; other site 1305849002463 phosphorylation site [posttranslational modification] 1305849002464 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1305849002465 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 1305849002466 intersubunit interface [polypeptide binding]; other site 1305849002467 active site 1305849002468 zinc binding site [ion binding]; other site 1305849002469 Na+ binding site [ion binding]; other site 1305849002470 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1305849002471 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1305849002472 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1305849002473 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 1305849002474 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 1305849002475 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1305849002476 putative substrate translocation pore; other site 1305849002477 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1305849002478 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1305849002479 ligand binding site [chemical binding]; other site 1305849002480 flexible hinge region; other site 1305849002481 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1305849002482 non-specific DNA interactions [nucleotide binding]; other site 1305849002483 DNA binding site [nucleotide binding] 1305849002484 sequence specific DNA binding site [nucleotide binding]; other site 1305849002485 putative cAMP binding site [chemical binding]; other site 1305849002486 TLP18.3, Psb32 and MOLO-1 founding proteins of phosphatase; Region: TPM; pfam04536 1305849002487 YycH protein; Region: YycI; cl02015 1305849002488 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 1305849002489 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_5; cd03408 1305849002490 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1305849002491 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1305849002492 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 1305849002493 Walker A motif; other site 1305849002494 ATP binding site [chemical binding]; other site 1305849002495 Walker B motif; other site 1305849002496 arginine finger; other site 1305849002497 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1305849002498 hypothetical protein; Validated; Region: PRK00153 1305849002499 recombination protein RecR; Reviewed; Region: recR; PRK00076 1305849002500 RecR protein; Region: RecR; pfam02132 1305849002501 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 1305849002502 putative active site [active] 1305849002503 putative metal-binding site [ion binding]; other site 1305849002504 tetramer interface [polypeptide binding]; other site 1305849002505 thymidylate kinase; Validated; Region: tmk; PRK00698 1305849002506 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 1305849002507 TMP-binding site; other site 1305849002508 ATP-binding site [chemical binding]; other site 1305849002509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3870 1305849002510 DNA polymerase III subunit delta'; Validated; Region: PRK08058 1305849002511 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1305849002512 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 1305849002513 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1305849002514 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1305849002515 putative SAM binding site [chemical binding]; other site 1305849002516 putative homodimer interface [polypeptide binding]; other site 1305849002517 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1305849002518 active site 1305849002519 DNA polymerase IV; Validated; Region: PRK02406 1305849002520 DNA binding site [nucleotide binding] 1305849002521 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1305849002522 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 1305849002523 FeS/SAM binding site; other site 1305849002524 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1305849002525 ATP cone domain; Region: ATP-cone; pfam03477 1305849002526 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1305849002527 effector binding site; other site 1305849002528 active site 1305849002529 Zn binding site [ion binding]; other site 1305849002530 glycine loop; other site 1305849002531 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1305849002532 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1305849002533 Walker A/P-loop; other site 1305849002534 ATP binding site [chemical binding]; other site 1305849002535 Q-loop/lid; other site 1305849002536 ABC transporter signature motif; other site 1305849002537 Walker B; other site 1305849002538 D-loop; other site 1305849002539 H-loop/switch region; other site 1305849002540 FtsX-like permease family; Region: FtsX; pfam02687 1305849002541 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 1305849002542 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1305849002543 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1305849002544 acyl-activating enzyme (AAE) consensus motif; other site 1305849002545 AMP binding site [chemical binding]; other site 1305849002546 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1305849002547 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 1305849002548 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 1305849002549 DltD N-terminal region; Region: DltD_N; pfam04915 1305849002550 DltD central region; Region: DltD_M; pfam04918 1305849002551 DltD C-terminal region; Region: DltD_C; pfam04914 1305849002552 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1305849002553 oligomer interface [polypeptide binding]; other site 1305849002554 active site 1305849002555 metal binding site [ion binding]; metal-binding site 1305849002556 Protein of unknown function (DUF975); Region: DUF975; cl10504 1305849002557 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1305849002558 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1305849002559 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1305849002560 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1305849002561 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; cl09440 1305849002562 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 1305849002563 Catalytic site [active] 1305849002564 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 1305849002565 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1305849002566 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1305849002567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1305849002568 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1305849002569 Helix-turn-helix domain; Region: HTH_36; pfam13730 1305849002570 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 1305849002571 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1305849002572 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 1305849002573 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1305849002574 putative active site [active] 1305849002575 putative NTP binding site [chemical binding]; other site 1305849002576 putative nucleic acid binding site [nucleotide binding]; other site 1305849002577 Type II intron maturase; Region: Intron_maturas2; pfam01348 1305849002578 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1305849002579 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1305849002580 Maff2 family; Region: Maff2; pfam12750 1305849002581 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 1305849002582 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1305849002583 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1305849002584 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1305849002585 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1305849002586 PhoU domain; Region: PhoU; pfam01895 1305849002587 PhoU domain; Region: PhoU; pfam01895 1305849002588 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 1305849002589 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1305849002590 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1305849002591 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 1305849002592 dimer interface [polypeptide binding]; other site 1305849002593 ssDNA binding site [nucleotide binding]; other site 1305849002594 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1305849002595 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 1305849002596 non-specific DNA binding site [nucleotide binding]; other site 1305849002597 salt bridge; other site 1305849002598 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002599 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849002600 Coenzyme A binding pocket [chemical binding]; other site 1305849002601 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1305849002602 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849002603 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1305849002604 Coenzyme A binding pocket [chemical binding]; other site 1305849002605 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1305849002606 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 1305849002607 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 1305849002608 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 1305849002609 MobA/MobL family; Region: MobA_MobL; pfam03389 1305849002610 Protein of unknown function N-terminal domain (DUF2450); Region: DUF2450; cl19949 1305849002611 CHC2 zinc finger; Region: zf-CHC2; cl17510 1305849002612 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1305849002613 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1305849002614 active site 1305849002615 metal binding site [ion binding]; metal-binding site 1305849002616 interdomain interaction site; other site 1305849002617 AAA domain; Region: AAA_25; pfam13481 1305849002618 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 1305849002619 ATP binding site [chemical binding]; other site 1305849002620 Walker A motif; other site 1305849002621 Walker B motif; other site 1305849002622 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1305849002623 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 1305849002624 putative catalytic residues [active] 1305849002625 catalytic nucleophile [active] 1305849002626 Recombinase; Region: Recombinase; pfam07508 1305849002627 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1305849002628 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 1305849002629 MT-A70; Region: MT-A70; pfam05063 1305849002630 AAA-like domain; Region: AAA_10; pfam12846 1305849002631 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1305849002632 NlpC/P60 family; Region: NLPC_P60; pfam00877 1305849002633 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 1305849002634 Bacterial SH3 domain; Region: SH3_3; pfam08239 1305849002635 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 1305849002636 DNA topoisomerase III; Provisional; Region: PRK07726 1305849002637 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1305849002638 active site 1305849002639 putative interdomain interaction site [polypeptide binding]; other site 1305849002640 putative metal-binding site [ion binding]; other site 1305849002641 putative nucleotide binding site [chemical binding]; other site 1305849002642 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 1305849002643 domain I; other site 1305849002644 DNA binding groove [nucleotide binding] 1305849002645 phosphate binding site [ion binding]; other site 1305849002646 domain II; other site 1305849002647 domain III; other site 1305849002648 nucleotide binding site [chemical binding]; other site 1305849002649 catalytic site [active] 1305849002650 domain IV; other site 1305849002651 Antirestriction protein (ArdA); Region: ArdA; cl01953 1305849002652 Domain of unknown function (DUF955); Region: DUF955; cl01076 1305849002653 YodL-like; Region: YodL; pfam14191 1305849002654 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 1305849002655 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 1305849002656 Helix-turn-helix domain; Region: HTH_16; pfam12645 1305849002657 Cysteine-rich VLP; Region: Cys_rich_VLP; pfam14194 1305849002658 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl19391 1305849002659 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1305849002660 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 1305849002661 non-specific DNA binding site [nucleotide binding]; other site 1305849002662 salt bridge; other site 1305849002663 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002664 Helix-turn-helix domain; Region: HTH_17; pfam12728 1305849002665 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1305849002666 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 1305849002667 active site 1305849002668 phosphorylation site [posttranslational modification] 1305849002669 intermolecular recognition site; other site 1305849002670 dimerization interface [polypeptide binding]; other site 1305849002671 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 1305849002672 DNA binding site [nucleotide binding] 1305849002673 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1305849002674 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 1305849002675 dimerization interface [polypeptide binding]; other site 1305849002676 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 1305849002677 dimer interface [polypeptide binding]; other site 1305849002678 phosphorylation site [posttranslational modification] 1305849002679 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 1305849002680 ATP binding site [chemical binding]; other site 1305849002681 Mg2+ binding site [ion binding]; other site 1305849002682 G-X-G motif; other site 1305849002683 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1305849002684 VanW like protein; Region: VanW; pfam04294 1305849002685 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 1305849002686 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1305849002687 putative ligand binding site [chemical binding]; other site 1305849002688 putative NAD binding site [chemical binding]; other site 1305849002689 catalytic site [active] 1305849002690 D-alanine--D-lactate ligase; Provisional; Region: vanB; PRK14568 1305849002691 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1305849002692 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1305849002693 D-ala-D-ala dipeptidase; Region: Peptidase_M15; pfam01427 1305849002694 putative transposase OrfB; Reviewed; Region: PHA02517 1305849002695 HTH-like domain; Region: HTH_21; pfam13276 1305849002696 Integrase core domain; Region: rve; pfam00665 1305849002697 Integrase core domain; Region: rve_2; pfam13333 1305849002698 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849002699 Helix-turn-helix domain; Region: HTH_28; pfam13518 1305849002700 Helix-turn-helix domain; Region: HTH_28; pfam13518 1305849002701 Winged helix-turn helix; Region: HTH_29; pfam13551 1305849002702 Homeodomain-like domain; Region: HTH_32; pfam13565 1305849002703 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1305849002704 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; cl17257 1305849002705 DNA binding residues [nucleotide binding] 1305849002706 Helix-turn-helix domain; Region: HTH_16; pfam12645 1305849002707 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 1305849002708 DNA binding domain of tn916 integrase; Region: Integrase_DNA; pfam02920 1305849002709 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1305849002710 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 1305849002711 Int/Topo IB signature motif; other site 1305849002712 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1305849002713 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 1305849002714 S-adenosylmethionine binding site [chemical binding]; other site 1305849002715 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1305849002716 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1305849002717 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1305849002718 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1305849002719 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1305849002720 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1305849002721 Fe-S cluster binding site [ion binding]; other site 1305849002722 active site 1305849002723 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1305849002724 Protein of unknown function (DUF464); Region: DUF464; pfam04327 1305849002725 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1305849002726 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 1305849002727 Int/Topo IB signature motif; other site 1305849002728 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1305849002729 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1305849002730 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 1305849002731 non-specific DNA binding site [nucleotide binding]; other site 1305849002732 salt bridge; other site 1305849002733 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002734 Prophage antirepressor [Transcription]; Region: COG3617 1305849002735 BRO family, N-terminal domain; Region: Bro-N; smart01040 1305849002736 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1305849002737 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1305849002738 non-specific DNA binding site [nucleotide binding]; other site 1305849002739 salt bridge; other site 1305849002740 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002741 Protein of unknown function (DUF1071); Region: DUF1071; pfam06378 1305849002742 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1305849002743 N-terminal phage replisome organizer (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 1305849002744 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 1305849002745 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1305849002746 Walker A motif; other site 1305849002747 ATP binding site [chemical binding]; other site 1305849002748 Walker B motif; other site 1305849002749 arginine finger; other site 1305849002750 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 1305849002751 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1305849002752 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1305849002753 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1305849002754 Probable transposase; Region: OrfB_IS605; pfam01385 1305849002755 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1305849002756 Protein of unknown function (DUF1140); Region: DUF1140; pfam06600 1305849002757 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 1305849002758 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1305849002759 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1305849002760 active site 1305849002761 Transmembrane adaptor Erv26; Region: Erv26; pfam04148 1305849002762 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1305849002763 Phage portal protein; Region: Phage_portal; pfam04860 1305849002764 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1305849002765 oligomer interface [polypeptide binding]; other site 1305849002766 active site residues [active] 1305849002767 Phage capsid family; Region: Phage_capsid; cl19393 1305849002768 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 1305849002769 Protein of unknown function (DUF745); Region: DUF745; pfam05335 1305849002770 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1305849002771 membrane protein P6; Region: PHA01399 1305849002772 membrane protein P6; Region: PHA01399 1305849002773 putative minor structural protein; Region: PHA01351 1305849002774 Phage tail protein; Region: Sipho_tail; cl17486 1305849002775 Prophage endopeptidase tail; Region: Prophage_tail; cl19379 1305849002776 Spectrin repeats; Region: SPEC; smart00150 1305849002777 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; pfam09693 1305849002778 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 1305849002779 amidase catalytic site [active] 1305849002780 Zn binding residues [ion binding]; other site 1305849002781 substrate binding site [chemical binding]; other site 1305849002782 Transposase; Region: HTH_Tnp_1; pfam01527 1305849002783 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849002784 putative transposase OrfB; Reviewed; Region: PHA02517 1305849002785 Integrase core domain; Region: rve; pfam00665 1305849002786 Integrase core domain; Region: rve_3; pfam13683 1305849002787 Helix-turn-helix domain; Region: HTH_28; pfam13518 1305849002788 Winged helix-turn helix; Region: HTH_29; pfam13551 1305849002789 Bacterial PH domain; Region: bPH_3; pfam14470 1305849002790 Short C-terminal domain; Region: SHOCT; pfam09851 1305849002791 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1305849002792 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 1305849002793 Walker A motif; other site 1305849002794 ATP binding site [chemical binding]; other site 1305849002795 Walker B motif; other site 1305849002796 arginine finger; other site 1305849002797 Transcriptional antiterminator [Transcription]; Region: COG3933 1305849002798 PRD domain; Region: PRD; pfam00874 1305849002799 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 1305849002800 active pocket/dimerization site; other site 1305849002801 active site 1305849002802 phosphorylation site [posttranslational modification] 1305849002803 PRD domain; Region: PRD; pfam00874 1305849002804 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 1305849002805 active site 1305849002806 phosphorylation site [posttranslational modification] 1305849002807 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1305849002808 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 1305849002809 active pocket/dimerization site; other site 1305849002810 active site 1305849002811 phosphorylation site [posttranslational modification] 1305849002812 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 1305849002813 active site 1305849002814 phosphorylation site [posttranslational modification] 1305849002815 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1305849002816 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1305849002817 Domain of unknown function (DUF956); Region: DUF956; pfam06115 1305849002818 Predicted membrane protein [Function unknown]; Region: COG2261 1305849002819 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1305849002820 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1305849002821 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 1305849002822 active site 1305849002823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1305849002824 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1305849002825 putative RNA binding site [nucleotide binding]; other site 1305849002826 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 1305849002827 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1305849002828 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1305849002829 homodimer interface [polypeptide binding]; other site 1305849002830 NADP binding site [chemical binding]; other site 1305849002831 substrate binding site [chemical binding]; other site 1305849002832 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1305849002833 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 1305849002834 generic binding surface II; other site 1305849002835 generic binding surface I; other site 1305849002836 Site-specific recombinase; Region: SpecificRecomb; cl15411 1305849002837 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1305849002838 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1305849002839 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1305849002840 substrate binding pocket [chemical binding]; other site 1305849002841 chain length determination region; other site 1305849002842 substrate-Mg2+ binding site; other site 1305849002843 catalytic residues [active] 1305849002844 aspartate-rich region 1; other site 1305849002845 active site lid residues [active] 1305849002846 aspartate-rich region 2; other site 1305849002847 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1305849002848 S4 RNA-binding domain; Region: S4; smart00363 1305849002849 RNA binding surface [nucleotide binding]; other site 1305849002850 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1305849002851 Arginine repressor [Transcription]; Region: ArgR; COG1438 1305849002852 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1305849002853 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1305849002854 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1305849002855 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1305849002856 Walker A/P-loop; other site 1305849002857 ATP binding site [chemical binding]; other site 1305849002858 Q-loop/lid; other site 1305849002859 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1305849002860 ABC transporter signature motif; other site 1305849002861 Walker B; other site 1305849002862 D-loop; other site 1305849002863 H-loop/switch region; other site 1305849002864 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 1305849002865 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1305849002866 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1305849002867 Cl binding site [ion binding]; other site 1305849002868 oligomer interface [polypeptide binding]; other site 1305849002869 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1305849002870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1305849002871 MraZ protein; Region: MraZ; pfam02381 1305849002872 MraZ protein; Region: MraZ; pfam02381 1305849002873 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 1305849002874 S-adenosylmethionine binding site [chemical binding]; other site 1305849002875 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1305849002876 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 1305849002877 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1305849002878 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 1305849002879 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 1305849002880 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 1305849002881 Mg++ binding site [ion binding]; other site 1305849002882 putative catalytic motif [active] 1305849002883 putative substrate binding site [chemical binding]; other site 1305849002884 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1305849002885 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1305849002886 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1305849002887 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1305849002888 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1305849002889 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 1305849002890 active site 1305849002891 homodimer interface [polypeptide binding]; other site 1305849002892 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1305849002893 Cell division protein FtsQ; Region: FtsQ; pfam03799 1305849002894 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1305849002895 Cell division protein FtsA; Region: FtsA; smart00842 1305849002896 Cell division protein FtsA; Region: FtsA; pfam14450 1305849002897 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 1305849002898 cell division protein FtsZ; Validated; Region: PRK09330 1305849002899 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 1305849002900 nucleotide binding site [chemical binding]; other site 1305849002901 SulA interaction site; other site 1305849002902 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1305849002903 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1305849002904 catalytic residue [active] 1305849002905 Protein of unknown function (DUF552); Region: DUF552; pfam04472 1305849002906 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1305849002907 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 1305849002908 RNA binding surface [nucleotide binding]; other site 1305849002909 DivIVA protein; Region: DivIVA; pfam05103 1305849002910 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 1305849002911 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1305849002912 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1305849002913 active site 1305849002914 HIGH motif; other site 1305849002915 KMSKS motif; other site 1305849002916 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1305849002917 tRNA binding surface [nucleotide binding]; other site 1305849002918 anticodon binding site; other site 1305849002919 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1305849002920 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1305849002921 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1305849002922 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1305849002923 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1305849002924 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1305849002925 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 1305849002926 FeoA domain; Region: FeoA; pfam04023 1305849002927 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 1305849002928 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1305849002929 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1305849002930 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1305849002931 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 1305849002932 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1305849002933 ATP binding site [chemical binding]; other site 1305849002934 putative Mg++ binding site [ion binding]; other site 1305849002935 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 1305849002936 nucleotide binding region [chemical binding]; other site 1305849002937 ATP-binding site [chemical binding]; other site 1305849002938 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 1305849002939 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1305849002940 putative DNA binding site [nucleotide binding]; other site 1305849002941 putative Zn2+ binding site [ion binding]; other site 1305849002942 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 1305849002943 Walker A motif; other site 1305849002944 ATP binding site [chemical binding]; other site 1305849002945 Walker B motif; other site 1305849002946 Transcriptional antiterminator [Transcription]; Region: COG3933 1305849002947 PRD domain; Region: PRD; pfam00874 1305849002948 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 1305849002949 active pocket/dimerization site; other site 1305849002950 active site 1305849002951 phosphorylation site [posttranslational modification] 1305849002952 PRD domain; Region: PRD; pfam00874 1305849002953 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 1305849002954 active site 1305849002955 P-loop; other site 1305849002956 phosphorylation site [posttranslational modification] 1305849002957 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 1305849002958 active site 1305849002959 methionine cluster; other site 1305849002960 phosphorylation site [posttranslational modification] 1305849002961 metal binding site [ion binding]; metal-binding site 1305849002962 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1305849002963 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1305849002964 Protein of unknown function (DUF3188); Region: DUF3188; pfam11384 1305849002965 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 1305849002966 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1305849002967 Sterol carrier protein domain; Region: SCP2_2; pfam13530 1305849002968 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1305849002969 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 1305849002970 Int/Topo IB signature motif; other site 1305849002971 Domain of unknown function (DUF4429); Region: DUF4429; pfam14472 1305849002972 Short C-terminal domain; Region: SHOCT; pfam09851 1305849002973 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1305849002974 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1305849002975 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 1305849002976 non-specific DNA binding site [nucleotide binding]; other site 1305849002977 salt bridge; other site 1305849002978 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002979 Prophage antirepressor [Transcription]; Region: COG3617 1305849002980 BRO family, N-terminal domain; Region: Bro-N; smart01040 1305849002981 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1305849002982 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1305849002983 non-specific DNA binding site [nucleotide binding]; other site 1305849002984 salt bridge; other site 1305849002985 sequence-specific DNA binding site [nucleotide binding]; other site 1305849002986 Domain of unknown function (DUF771); Region: DUF771; pfam05595 1305849002987 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1305849002988 ORF6C domain; Region: ORF6C; pfam10552 1305849002989 Protein of unknown function (DUF1071); Region: DUF1071; pfam06378 1305849002990 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1305849002991 Helix-turn-helix domain; Region: HTH_36; pfam13730 1305849002992 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 1305849002993 putative metal binding site [ion binding]; other site 1305849002994 Domain of Unknown Function with PDB structure (DUF3850); Region: DUF3850; pfam12961 1305849002995 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; cl17257 1305849002996 DNA binding residues [nucleotide binding] 1305849002997 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 1305849002998 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1305849002999 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1305849003000 active site 1305849003001 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1305849003002 Phage Terminase; Region: Terminase_1; cl19862 1305849003003 Phage portal protein; Region: Phage_portal; cl19194 1305849003004 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 1305849003005 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1305849003006 Phage capsid family; Region: Phage_capsid; pfam05065 1305849003007 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1305849003008 oligomerization interface [polypeptide binding]; other site 1305849003009 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 1305849003010 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 1305849003011 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 1305849003012 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 1305849003013 Phage-related minor tail protein [Function unknown]; Region: COG5280 1305849003014 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1305849003015 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl19164 1305849003016 Phage tail protein; Region: Sipho_tail; cl17486 1305849003017 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 1305849003018 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 1305849003019 rod shape-determining protein MreC; Provisional; Region: PRK13922 1305849003020 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; pfam09693 1305849003021 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 1305849003022 amidase catalytic site [active] 1305849003023 Zn binding residues [ion binding]; other site 1305849003024 substrate binding site [chemical binding]; other site 1305849003025 AAA-like domain; Region: AAA_10; pfam12846 1305849003026 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1305849003027 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1305849003028 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1305849003029 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1305849003030 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1305849003031 Bacterial regulatory proteins, tetR family; Region: TetR_N; cl19382 1305849003032 WHG domain; Region: WHG; pfam13305 1305849003033 flavodoxin; Validated; Region: PRK07308 1305849003034 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 1305849003035 active site 1305849003036 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1305849003037 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1305849003038 Mg++ binding site [ion binding]; other site 1305849003039 putative catalytic motif [active] 1305849003040 substrate binding site [chemical binding]; other site 1305849003041 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1305849003042 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 1305849003043 active site 1305849003044 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 1305849003045 active site 1305849003046 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1305849003047 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1305849003048 Probable Catalytic site; other site 1305849003049 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1305849003050 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1305849003051 substrate binding site; other site 1305849003052 tetramer interface; other site 1305849003053 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1305849003054 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1305849003055 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1305849003056 NAD binding site [chemical binding]; other site 1305849003057 substrate binding site [chemical binding]; other site 1305849003058 homodimer interface [polypeptide binding]; other site 1305849003059 active site 1305849003060 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1305849003061 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1305849003062 NADP binding site [chemical binding]; other site 1305849003063 active site 1305849003064 putative substrate binding site [chemical binding]; other site 1305849003065 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 1305849003066 O-Antigen ligase; Region: Wzy_C; cl04850 1305849003067 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1305849003068 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1305849003069 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1305849003070 Walker A/P-loop; other site 1305849003071 ATP binding site [chemical binding]; other site 1305849003072 Q-loop/lid; other site 1305849003073 ABC transporter signature motif; other site 1305849003074 Walker B; other site 1305849003075 D-loop; other site 1305849003076 H-loop/switch region; other site 1305849003077 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1305849003078 putative carbohydrate binding site [chemical binding]; other site 1305849003079 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1305849003080 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 1305849003081 S-adenosylmethionine binding site [chemical binding]; other site 1305849003082 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1305849003083 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1305849003084 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 1305849003085 Probable Catalytic site; other site 1305849003086 metal-binding site 1305849003087 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1305849003088 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1305849003089 Probable Catalytic site; other site 1305849003090 metal-binding site 1305849003091 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1305849003092 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1305849003093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1305849003094 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1305849003095 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1305849003096 CoA binding domain; Region: CoA_binding; cl17356 1305849003097 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1305849003098 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1305849003099 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 1305849003100 active site 1305849003101 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1305849003102 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 1305849003103 putative ADP-binding pocket [chemical binding]; other site 1305849003104 Core-2/I-Branching enzyme; Region: Branch; pfam02485 1305849003105 O-Antigen ligase; Region: Wzy_C; pfam04932 1305849003106 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1305849003107 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1305849003108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1305849003109 NAD(P) binding site [chemical binding]; other site 1305849003110 active site 1305849003111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1305849003112 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1305849003113 NeuB family; Region: NeuB; pfam03102 1305849003114 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1305849003115 NeuB binding interface [polypeptide binding]; other site 1305849003116 putative substrate binding site [chemical binding]; other site 1305849003117 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1305849003118 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 1305849003119 active site 1305849003120 homodimer interface [polypeptide binding]; other site 1305849003121 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1305849003122 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1305849003123 putative trimer interface [polypeptide binding]; other site 1305849003124 putative CoA binding site [chemical binding]; other site 1305849003125 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 1305849003126 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 1305849003127 inhibitor-cofactor binding pocket; inhibition site 1305849003128 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849003129 catalytic residue [active] 1305849003130 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1305849003131 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1305849003132 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 1305849003133 active site 1305849003134 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 1305849003135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1305849003136 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1305849003137 NAD(P) binding site [chemical binding]; other site 1305849003138 active site 1305849003139 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849003140 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849003141 Homeodomain-like domain; Region: HTH_23; pfam13384 1305849003142 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003143 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849003144 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849003145 Integrase core domain; Region: rve; pfam00665 1305849003146 Integrase core domain; Region: rve_3; cl15866 1305849003147 MULE transposase domain; Region: MULE; pfam10551 1305849003148 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1305849003149 Beta-lactamase; Region: Beta-lactamase; pfam00144 1305849003150 YceG-like family; Region: YceG; pfam02618 1305849003151 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1305849003152 dimerization interface [polypeptide binding]; other site 1305849003153 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1305849003154 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1305849003155 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1305849003156 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1305849003157 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1305849003158 Histidine kinase; Region: HisKA_3; pfam07730 1305849003159 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 1305849003160 ATP binding site [chemical binding]; other site 1305849003161 Mg2+ binding site [ion binding]; other site 1305849003162 G-X-G motif; other site 1305849003163 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1305849003164 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 1305849003165 active site 1305849003166 phosphorylation site [posttranslational modification] 1305849003167 intermolecular recognition site; other site 1305849003168 dimerization interface [polypeptide binding]; other site 1305849003169 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 1305849003170 DNA binding residues [nucleotide binding] 1305849003171 dimerization interface [polypeptide binding]; other site 1305849003172 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1305849003173 TrkA-N domain; Region: TrkA_N; pfam02254 1305849003174 TrkA-C domain; Region: TrkA_C; pfam02080 1305849003175 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1305849003176 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849003177 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849003178 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003179 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1305849003180 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 1305849003181 putative ligand binding site [chemical binding]; other site 1305849003182 NAD binding site [chemical binding]; other site 1305849003183 catalytic site [active] 1305849003184 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 1305849003185 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1305849003186 GtrA-like protein; Region: GtrA; pfam04138 1305849003187 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1305849003188 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1305849003189 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1305849003190 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1305849003191 DNA-binding site [nucleotide binding]; DNA binding site 1305849003192 RNA-binding motif; other site 1305849003193 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003194 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849003195 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849003196 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003197 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1305849003198 TspO/MBR family; Region: TspO_MBR; pfam03073 1305849003199 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1305849003200 TRAM domain; Region: TRAM; pfam01938 1305849003201 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1305849003202 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 1305849003203 S-adenosylmethionine binding site [chemical binding]; other site 1305849003204 RecX family; Region: RecX; cl00936 1305849003205 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1305849003206 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1305849003207 minor groove reading motif; other site 1305849003208 helix-hairpin-helix signature motif; other site 1305849003209 substrate binding pocket [chemical binding]; other site 1305849003210 active site 1305849003211 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1305849003212 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 1305849003213 DNA binding and oxoG recognition site [nucleotide binding] 1305849003214 hypothetical protein; Provisional; Region: PRK13662 1305849003215 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1305849003216 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849003217 Coenzyme A binding pocket [chemical binding]; other site 1305849003218 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1305849003219 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1305849003220 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1305849003221 Domain of unknown function DUF21; Region: DUF21; pfam01595 1305849003222 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 1305849003223 Transporter associated domain; Region: CorC_HlyC; pfam03471 1305849003224 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1305849003225 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1305849003226 G1 box; other site 1305849003227 putative GEF interaction site [polypeptide binding]; other site 1305849003228 GTP/Mg2+ binding site [chemical binding]; other site 1305849003229 Switch I region; other site 1305849003230 G2 box; other site 1305849003231 G3 box; other site 1305849003232 Switch II region; other site 1305849003233 G4 box; other site 1305849003234 G5 box; other site 1305849003235 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 1305849003236 Elongation Factor G, domain II; Region: EFG_II; pfam14492 1305849003237 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 1305849003238 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 1305849003239 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1305849003240 Walker A motif; other site 1305849003241 ATP binding site [chemical binding]; other site 1305849003242 Walker B motif; other site 1305849003243 arginine finger; other site 1305849003244 UvrB/uvrC motif; Region: UVR; pfam02151 1305849003245 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 1305849003246 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1305849003247 Walker A motif; other site 1305849003248 ATP binding site [chemical binding]; other site 1305849003249 Walker B motif; other site 1305849003250 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1305849003251 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 1305849003252 dimerization domain swap beta strand [polypeptide binding]; other site 1305849003253 regulatory protein interface [polypeptide binding]; other site 1305849003254 active site 1305849003255 regulatory phosphorylation site [posttranslational modification]; other site 1305849003256 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1305849003257 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 1305849003258 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1305849003259 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1305849003260 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1305849003261 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 1305849003262 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1305849003263 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 1305849003264 putative ADP-binding pocket [chemical binding]; other site 1305849003265 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1305849003266 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1305849003267 Protein of unknown function (DUF1797); Region: DUF1797; pfam08796 1305849003268 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 1305849003269 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1305849003270 GIY-YIG motif/motif A; other site 1305849003271 active site 1305849003272 catalytic site [active] 1305849003273 putative DNA binding site [nucleotide binding]; other site 1305849003274 metal binding site [ion binding]; metal-binding site 1305849003275 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1305849003276 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1305849003277 putative Zn2+ binding site [ion binding]; other site 1305849003278 putative DNA binding site [nucleotide binding]; other site 1305849003279 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1305849003280 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 1305849003281 dimer interface [polypeptide binding]; other site 1305849003282 active site 1305849003283 CoA binding pocket [chemical binding]; other site 1305849003284 acyl carrier protein; Provisional; Region: acpP; PRK00982 1305849003285 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1305849003286 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 1305849003287 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1305849003288 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1305849003289 NAD(P) binding site [chemical binding]; other site 1305849003290 homotetramer interface [polypeptide binding]; other site 1305849003291 homodimer interface [polypeptide binding]; other site 1305849003292 active site 1305849003293 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1305849003294 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 1305849003295 dimer interface [polypeptide binding]; other site 1305849003296 active site 1305849003297 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1305849003298 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 1305849003299 carboxyltransferase (CT) interaction site; other site 1305849003300 biotinylation site [posttranslational modification]; other site 1305849003301 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 1305849003302 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1305849003303 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1305849003304 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1305849003305 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1305849003306 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1305849003307 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 1305849003308 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 1305849003309 active site 1305849003310 motif I; other site 1305849003311 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1305849003312 motif II; other site 1305849003313 GTPase YqeH; Provisional; Region: PRK13796 1305849003314 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1305849003315 GTP/Mg2+ binding site [chemical binding]; other site 1305849003316 G4 box; other site 1305849003317 G5 box; other site 1305849003318 G1 box; other site 1305849003319 Switch I region; other site 1305849003320 G2 box; other site 1305849003321 G3 box; other site 1305849003322 Switch II region; other site 1305849003323 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1305849003324 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1305849003325 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1305849003326 active site 1305849003327 (T/H)XGH motif; other site 1305849003328 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1305849003329 Zn2+ binding site [ion binding]; other site 1305849003330 Mg2+ binding site [ion binding]; other site 1305849003331 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1305849003332 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 1305849003333 S-adenosylmethionine binding site [chemical binding]; other site 1305849003334 hypothetical protein; Provisional; Region: PRK13670 1305849003335 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1305849003336 hypothetical protein; Provisional; Region: PRK12378 1305849003337 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1305849003338 Part of AAA domain; Region: AAA_19; pfam13245 1305849003339 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 1305849003340 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1305849003341 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849003342 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1305849003343 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 1305849003344 active site 1 [active] 1305849003345 dimer interface [polypeptide binding]; other site 1305849003346 hexamer interface [polypeptide binding]; other site 1305849003347 active site 2 [active] 1305849003348 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1305849003349 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 1305849003350 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1305849003351 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 1305849003352 active site 1305849003353 dimer interface [polypeptide binding]; other site 1305849003354 motif 1; other site 1305849003355 motif 2; other site 1305849003356 motif 3; other site 1305849003357 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 1305849003358 anticodon binding site; other site 1305849003359 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1305849003360 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1305849003361 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 1305849003362 putative active site [active] 1305849003363 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1305849003364 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 1305849003365 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1305849003366 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 1305849003367 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1305849003368 active site 1305849003369 motif I; other site 1305849003370 motif II; other site 1305849003371 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1305849003372 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1305849003373 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1305849003374 drug efflux system protein MdtG; Provisional; Region: PRK09874 1305849003375 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 1305849003376 putative substrate translocation pore; other site 1305849003377 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 1305849003378 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 1305849003379 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1305849003380 active site 1305849003381 PHP Thumb interface [polypeptide binding]; other site 1305849003382 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1305849003383 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 1305849003384 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 1305849003385 generic binding surface I; other site 1305849003386 generic binding surface II; other site 1305849003387 6-phosphofructokinase; Provisional; Region: PRK03202 1305849003388 active site 1305849003389 ADP/pyrophosphate binding site [chemical binding]; other site 1305849003390 dimerization interface [polypeptide binding]; other site 1305849003391 allosteric effector site; other site 1305849003392 fructose-1,6-bisphosphate binding site; other site 1305849003393 pyruvate kinase; Provisional; Region: PRK06354 1305849003394 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 1305849003395 domain interfaces; other site 1305849003396 active site 1305849003397 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 1305849003398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1305849003399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1305849003400 The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold; Region: PBP2_MleR; cd08437 1305849003401 putative dimerization interface [polypeptide binding]; other site 1305849003402 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1305849003403 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1305849003404 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849003405 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003406 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1305849003407 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1305849003408 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1305849003409 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1305849003410 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 1305849003411 active site 1305849003412 phosphorylation site [posttranslational modification] 1305849003413 intermolecular recognition site; other site 1305849003414 dimerization interface [polypeptide binding]; other site 1305849003415 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 1305849003416 DNA binding site [nucleotide binding] 1305849003417 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1305849003418 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 1305849003419 dimerization interface [polypeptide binding]; other site 1305849003420 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 1305849003421 dimer interface [polypeptide binding]; other site 1305849003422 phosphorylation site [posttranslational modification] 1305849003423 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 1305849003424 ATP binding site [chemical binding]; other site 1305849003425 Mg2+ binding site [ion binding]; other site 1305849003426 G-X-G motif; other site 1305849003427 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849003428 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003429 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1305849003430 CAT RNA binding domain; Region: CAT_RBD; smart01061 1305849003431 PRD domain; Region: PRD; pfam00874 1305849003432 PRD domain; Region: PRD; pfam00874 1305849003433 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 1305849003434 putative active site [active] 1305849003435 YdjC motif; other site 1305849003436 Mg binding site [ion binding]; other site 1305849003437 putative homodimer interface [polypeptide binding]; other site 1305849003438 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1305849003439 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1305849003440 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 1305849003441 active site turn [active] 1305849003442 phosphorylation site [posttranslational modification] 1305849003443 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1305849003444 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1305849003445 NAD(P) binding site [chemical binding]; other site 1305849003446 LDH/MDH dimer interface [polypeptide binding]; other site 1305849003447 substrate binding site [chemical binding]; other site 1305849003448 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1305849003449 HPr interaction site; other site 1305849003450 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1305849003451 active site 1305849003452 phosphorylation site [posttranslational modification] 1305849003453 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1305849003454 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1305849003455 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 1305849003456 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1305849003457 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 1305849003458 non-specific DNA binding site [nucleotide binding]; other site 1305849003459 salt bridge; other site 1305849003460 sequence-specific DNA binding site [nucleotide binding]; other site 1305849003461 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 1305849003462 binding surface 1305849003463 TPR motif; other site 1305849003464 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1305849003465 TPR repeat; Region: TPR_11; pfam13414 1305849003466 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1305849003467 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1305849003468 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1305849003469 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1305849003470 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 1305849003471 active site 1305849003472 phosphorylation site [posttranslational modification] 1305849003473 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1305849003474 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 1305849003475 active site 1305849003476 P-loop; other site 1305849003477 phosphorylation site [posttranslational modification] 1305849003478 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 1305849003479 active site 1305849003480 dimer interface [polypeptide binding]; other site 1305849003481 magnesium binding site [ion binding]; other site 1305849003482 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1305849003483 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1305849003484 AP (apurinic/apyrimidinic) site pocket; other site 1305849003485 DNA interaction; other site 1305849003486 Metal-binding active site; metal-binding site 1305849003487 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1305849003488 intersubunit interface [polypeptide binding]; other site 1305849003489 active site 1305849003490 Zn2+ binding site [ion binding]; other site 1305849003491 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849003492 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1305849003493 Coenzyme A binding pocket [chemical binding]; other site 1305849003494 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 1305849003495 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849003496 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849003497 Integrase core domain; Region: rve; pfam00665 1305849003498 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1305849003499 HTH domain; Region: HTH_11; pfam08279 1305849003500 PRD domain; Region: PRD; pfam00874 1305849003501 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 1305849003502 active site 1305849003503 P-loop; other site 1305849003504 phosphorylation site [posttranslational modification] 1305849003505 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 1305849003506 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1305849003507 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1305849003508 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1305849003509 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 1305849003510 active site 1305849003511 P-loop; other site 1305849003512 phosphorylation site [posttranslational modification] 1305849003513 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1305849003514 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1305849003515 active site 1305849003516 intersubunit interface [polypeptide binding]; other site 1305849003517 Zn2+ binding site [ion binding]; other site 1305849003518 Predicted esterase [General function prediction only]; Region: COG0400 1305849003519 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 1305849003520 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1305849003521 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1305849003522 Zn binding site [ion binding]; other site 1305849003523 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1305849003524 Zn binding site [ion binding]; other site 1305849003525 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1305849003526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849003527 DNA-binding site [nucleotide binding]; DNA binding site 1305849003528 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1305849003529 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1305849003530 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1305849003531 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1305849003532 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 1305849003533 Ligand Binding Site [chemical binding]; other site 1305849003534 Predicted transcriptional regulators [Transcription]; Region: COG1695 1305849003535 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 1305849003536 putative catalytic residues [active] 1305849003537 thiol/disulfide switch; other site 1305849003538 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 1305849003539 dimer interface [polypeptide binding]; other site 1305849003540 substrate binding site [chemical binding]; other site 1305849003541 ATP binding site [chemical binding]; other site 1305849003542 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1305849003543 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1305849003544 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1305849003545 putative active site [active] 1305849003546 catalytic site [active] 1305849003547 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1305849003548 putative active site [active] 1305849003549 catalytic site [active] 1305849003550 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1305849003551 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1305849003552 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849003553 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1305849003554 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1305849003555 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1305849003556 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 1305849003557 S-adenosylmethionine binding site [chemical binding]; other site 1305849003558 "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 1305849003559 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1305849003560 dimer interface [polypeptide binding]; other site 1305849003561 active site 1305849003562 putative acyltransferase; Provisional; Region: PRK05790 1305849003563 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1305849003564 dimer interface [polypeptide binding]; other site 1305849003565 active site 1305849003566 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1305849003567 homodimer interface [polypeptide binding]; other site 1305849003568 catalytic residues [active] 1305849003569 NAD binding site [chemical binding]; other site 1305849003570 substrate binding pocket [chemical binding]; other site 1305849003571 flexible flap; other site 1305849003572 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849003573 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003574 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 1305849003575 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1305849003576 active site 1305849003577 catalytic tetrad [active] 1305849003578 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 1305849003579 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 1305849003580 elongation factor Tu; Reviewed; Region: PRK00049 1305849003581 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1305849003582 G1 box; other site 1305849003583 GEF interaction site [polypeptide binding]; other site 1305849003584 GTP/Mg2+ binding site [chemical binding]; other site 1305849003585 Switch I region; other site 1305849003586 G2 box; other site 1305849003587 G3 box; other site 1305849003588 Switch II region; other site 1305849003589 G4 box; other site 1305849003590 G5 box; other site 1305849003591 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 1305849003592 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 1305849003593 Antibiotic Binding Site [chemical binding]; other site 1305849003594 Predicted integral membrane protein [Function unknown]; Region: COG0392 1305849003595 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1305849003596 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1305849003597 Putative lysophospholipase; Region: Hydrolase_4; cl19140 1305849003598 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1305849003599 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1305849003600 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 1305849003601 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1305849003602 catalytic residue [active] 1305849003603 Domain of unknown function (DUF368); Region: DUF368; cl00893 1305849003604 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1305849003605 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849003606 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 1305849003607 motif II; other site 1305849003608 DNA primase; Validated; Region: dnaG; PRK05667 1305849003609 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1305849003610 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1305849003611 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 1305849003612 active site 1305849003613 metal binding site [ion binding]; metal-binding site 1305849003614 interdomain interaction site; other site 1305849003615 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1305849003616 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1305849003617 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1305849003618 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1305849003619 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1305849003620 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1305849003621 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 1305849003622 DNA binding residues [nucleotide binding] 1305849003623 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 1305849003624 Hsp90 protein; Region: HSP90; pfam00183 1305849003625 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1305849003626 S1 domain; Region: S1_2; pfam13509 1305849003627 ferric uptake regulator; Provisional; Region: fur; PRK09462 1305849003628 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1305849003629 metal binding site 2 [ion binding]; metal-binding site 1305849003630 putative DNA binding helix; other site 1305849003631 metal binding site 1 [ion binding]; metal-binding site 1305849003632 dimer interface [polypeptide binding]; other site 1305849003633 structural Zn2+ binding site [ion binding]; other site 1305849003634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849003635 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003636 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1305849003637 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1305849003638 active site 1305849003639 Int/Topo IB signature motif; other site 1305849003640 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1305849003641 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1305849003642 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1305849003643 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 1305849003644 RNA binding surface [nucleotide binding]; other site 1305849003645 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1305849003646 active site 1305849003647 Predicted membrane protein [Function unknown]; Region: COG3601 1305849003648 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1305849003649 Predicted membrane protein [Function unknown]; Region: COG1288 1305849003650 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1305849003651 hypothetical protein; Provisional; Region: PRK07205 1305849003652 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1305849003653 active site 1305849003654 metal binding site [ion binding]; metal-binding site 1305849003655 Chain length determinant protein; Region: Wzz; pfam02706 1305849003656 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1305849003657 Putative lysophospholipase; Region: Hydrolase_4; cl19140 1305849003658 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1305849003659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 1305849003660 Helix-turn-helix domain; Region: HTH_40; pfam14493 1305849003661 ATP-dependent DNA helicase, RecQ family; Region: recQ_fam; TIGR00614 1305849003662 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 1305849003663 ATP binding site [chemical binding]; other site 1305849003664 putative Mg++ binding site [ion binding]; other site 1305849003665 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 1305849003666 nucleotide binding region [chemical binding]; other site 1305849003667 ATP-binding site [chemical binding]; other site 1305849003668 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1305849003669 cytidylate kinase; Provisional; Region: cmk; PRK00023 1305849003670 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 1305849003671 CMP-binding site; other site 1305849003672 The sites determining sugar specificity; other site 1305849003673 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1305849003674 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 1305849003675 RNA binding site [nucleotide binding]; other site 1305849003676 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 1305849003677 RNA binding site [nucleotide binding]; other site 1305849003678 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 1305849003679 RNA binding site [nucleotide binding]; other site 1305849003680 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1305849003681 RNA binding site [nucleotide binding]; other site 1305849003682 GTP-binding protein Der; Reviewed; Region: PRK00093 1305849003683 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1305849003684 G1 box; other site 1305849003685 GTP/Mg2+ binding site [chemical binding]; other site 1305849003686 Switch I region; other site 1305849003687 G2 box; other site 1305849003688 Switch II region; other site 1305849003689 G3 box; other site 1305849003690 G4 box; other site 1305849003691 G5 box; other site 1305849003692 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1305849003693 G1 box; other site 1305849003694 GTP/Mg2+ binding site [chemical binding]; other site 1305849003695 Switch I region; other site 1305849003696 G2 box; other site 1305849003697 G3 box; other site 1305849003698 Switch II region; other site 1305849003699 G4 box; other site 1305849003700 G5 box; other site 1305849003701 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 1305849003702 histone-like DNA-binding protein HU; Region: HU; cd13831 1305849003703 dimer interface [polypeptide binding]; other site 1305849003704 DNA binding site [nucleotide binding] 1305849003705 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849003706 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003707 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1305849003708 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 1305849003709 TPR motif; other site 1305849003710 binding surface 1305849003711 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 1305849003712 binding surface 1305849003713 TPR motif; other site 1305849003714 hypothetical protein; Provisional; Region: PRK03636 1305849003715 UPF0302 domain; Region: UPF0302; pfam08864 1305849003716 IDEAL domain; Region: IDEAL; pfam08858 1305849003717 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1305849003718 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1305849003719 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1305849003720 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1305849003721 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 1305849003722 homodimer interface [polypeptide binding]; other site 1305849003723 metal binding site [ion binding]; metal-binding site 1305849003724 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1305849003725 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1305849003726 active site 1305849003727 NTP binding site [chemical binding]; other site 1305849003728 metal binding triad [ion binding]; metal-binding site 1305849003729 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1305849003730 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1305849003731 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849003732 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003733 acyl-CoA synthetase; Provisional; Region: PTZ00216 1305849003734 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1305849003735 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1305849003736 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849003737 ABC transporter; Region: ABC_tran_2; pfam12848 1305849003738 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849003739 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 1305849003740 dimerization interface [polypeptide binding]; other site 1305849003741 active site 1305849003742 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 1305849003743 folate binding site [chemical binding]; other site 1305849003744 NADP+ binding site [chemical binding]; other site 1305849003745 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1305849003746 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1305849003747 EDD domain protein, DegV family; Region: DegV; TIGR00762 1305849003748 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1305849003749 Members of the SGNH-hydrolase superfamily, 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_YpmR_like; cd04506 1305849003750 active site 1305849003751 catalytic triad [active] 1305849003752 oxyanion hole [active] 1305849003753 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 1305849003754 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1305849003755 hypothetical protein; Provisional; Region: PRK13672 1305849003756 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1305849003757 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 1305849003758 Catalytic site [active] 1305849003759 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1305849003760 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_24; cd09012 1305849003761 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1305849003762 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 1305849003763 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1305849003764 GTP/Mg2+ binding site [chemical binding]; other site 1305849003765 G4 box; other site 1305849003766 G5 box; other site 1305849003767 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1305849003768 G1 box; other site 1305849003769 G1 box; other site 1305849003770 GTP/Mg2+ binding site [chemical binding]; other site 1305849003771 Switch I region; other site 1305849003772 G2 box; other site 1305849003773 G2 box; other site 1305849003774 G3 box; other site 1305849003775 G3 box; other site 1305849003776 Switch II region; other site 1305849003777 Switch II region; other site 1305849003778 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1305849003779 RNA/DNA hybrid binding site [nucleotide binding]; other site 1305849003780 active site 1305849003781 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1305849003782 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1305849003783 DNA topoisomerase I; Validated; Region: PRK05582 1305849003784 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 1305849003785 active site 1305849003786 interdomain interaction site; other site 1305849003787 putative metal-binding site [ion binding]; other site 1305849003788 nucleotide binding site [chemical binding]; other site 1305849003789 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 1305849003790 domain I; other site 1305849003791 DNA binding groove [nucleotide binding] 1305849003792 phosphate binding site [ion binding]; other site 1305849003793 domain II; other site 1305849003794 domain III; other site 1305849003795 nucleotide binding site [chemical binding]; other site 1305849003796 catalytic site [active] 1305849003797 domain IV; other site 1305849003798 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1305849003799 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1305849003800 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1305849003801 Glucose inhibited division protein A; Region: GIDA; pfam01134 1305849003802 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1305849003803 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1305849003804 active site 1305849003805 Int/Topo IB signature motif; other site 1305849003806 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1305849003807 active site 1305849003808 HslU subunit interaction site [polypeptide binding]; other site 1305849003809 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1305849003810 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1305849003811 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 1305849003812 Walker A motif; other site 1305849003813 ATP binding site [chemical binding]; other site 1305849003814 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1305849003815 Walker B motif; other site 1305849003816 arginine finger; other site 1305849003817 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1305849003818 transcriptional repressor CodY; Validated; Region: PRK04158 1305849003819 CodY GAF-like domain; Region: CodY; pfam06018 1305849003820 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 1305849003821 putative DNA binding site [nucleotide binding]; other site 1305849003822 putative Zn2+ binding site [ion binding]; other site 1305849003823 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1305849003824 active site 1305849003825 catalytic residues [active] 1305849003826 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849003827 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003828 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 1305849003829 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1305849003830 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1305849003831 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 1305849003832 ATP binding site [chemical binding]; other site 1305849003833 Mg2+ binding site [ion binding]; other site 1305849003834 G-X-G motif; other site 1305849003835 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 1305849003836 anchoring element; other site 1305849003837 dimer interface [polypeptide binding]; other site 1305849003838 ATP binding site [chemical binding]; other site 1305849003839 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1305849003840 active site 1305849003841 metal binding site [ion binding]; metal-binding site 1305849003842 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1305849003843 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1305849003844 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 1305849003845 CAP-like domain; other site 1305849003846 active site 1305849003847 primary dimer interface [polypeptide binding]; other site 1305849003848 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1305849003849 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1305849003850 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1305849003851 Pyruvate formate lyase 1; Region: PFL1; cd01678 1305849003852 coenzyme A binding site [chemical binding]; other site 1305849003853 active site 1305849003854 catalytic residues [active] 1305849003855 glycine loop; other site 1305849003856 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1305849003857 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 1305849003858 FeS/SAM binding site; other site 1305849003859 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1305849003860 DHH family; Region: DHH; pfam01368 1305849003861 DHHA2 domain; Region: DHHA2; pfam02833 1305849003862 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1305849003863 hypothetical protein; Provisional; Region: PRK04164 1305849003864 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1305849003865 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 1305849003866 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1305849003867 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849003868 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849003869 DNA binding site [nucleotide binding] 1305849003870 domain linker motif; other site 1305849003871 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1305849003872 ligand binding site [chemical binding]; other site 1305849003873 dimerization interface [polypeptide binding]; other site 1305849003874 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1305849003875 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1305849003876 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 1305849003877 dimer interface [polypeptide binding]; other site 1305849003878 conserved gate region; other site 1305849003879 ABC-ATPase subunit interface; other site 1305849003880 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1305849003881 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1305849003882 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1305849003883 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849003884 Walker A/P-loop; other site 1305849003885 ATP binding site [chemical binding]; other site 1305849003886 Q-loop/lid; other site 1305849003887 ABC transporter signature motif; other site 1305849003888 Walker B; other site 1305849003889 D-loop; other site 1305849003890 H-loop/switch region; other site 1305849003891 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1305849003892 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1305849003893 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849003894 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1305849003895 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1305849003896 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 1305849003897 dimer interface [polypeptide binding]; other site 1305849003898 conserved gate region; other site 1305849003899 putative PBP binding loops; other site 1305849003900 ABC-ATPase subunit interface; other site 1305849003901 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1305849003902 NMT1/THI5 like; Region: NMT1; pfam09084 1305849003903 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1305849003904 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849003905 Walker A/P-loop; other site 1305849003906 ATP binding site [chemical binding]; other site 1305849003907 Q-loop/lid; other site 1305849003908 ABC transporter signature motif; other site 1305849003909 Walker B; other site 1305849003910 D-loop; other site 1305849003911 H-loop/switch region; other site 1305849003912 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 1305849003913 active site 1305849003914 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1305849003915 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 1305849003916 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 1305849003917 Transposase, Mutator family; Region: Transposase_mut; cl19537 1305849003918 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1305849003919 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849003920 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849003921 Homeodomain-like domain; Region: HTH_23; pfam13384 1305849003922 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849003923 aminotransferase AlaT; Validated; Region: PRK09265 1305849003924 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 1305849003925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849003926 homodimer interface [polypeptide binding]; other site 1305849003927 catalytic residue [active] 1305849003928 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 1305849003929 non-specific DNA binding site [nucleotide binding]; other site 1305849003930 salt bridge; other site 1305849003931 sequence-specific DNA binding site [nucleotide binding]; other site 1305849003932 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1305849003933 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 1305849003934 active site 1305849003935 dimer interface [polypeptide binding]; other site 1305849003936 Membrane transport protein; Region: Mem_trans; cl09117 1305849003937 (R)-2-Hydroxyglutarate Dehydrogenase and related dehydrogenases, NAD-binding and catalytic domains; Region: HGDH_like; cd12184 1305849003938 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1305849003939 putative homodimer interface [polypeptide binding]; other site 1305849003940 putative ligand binding site [chemical binding]; other site 1305849003941 putative NAD binding site [chemical binding]; other site 1305849003942 catalytic site [active] 1305849003943 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1305849003944 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 1305849003945 active site 1305849003946 phosphorylation site [posttranslational modification] 1305849003947 intermolecular recognition site; other site 1305849003948 dimerization interface [polypeptide binding]; other site 1305849003949 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 1305849003950 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 1305849003951 ATP binding site [chemical binding]; other site 1305849003952 Mg2+ binding site [ion binding]; other site 1305849003953 G-X-G motif; other site 1305849003954 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 1305849003955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1305849003956 Flotillin or reggie family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_flotillin; cd03399 1305849003957 core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like; cl19107 1305849003958 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1305849003959 Predicted membrane protein [Function unknown]; Region: COG4129 1305849003960 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1305849003961 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 1305849003962 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1305849003963 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1305849003964 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1305849003965 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1305849003966 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1305849003967 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1305849003968 Class I aldolases; Region: Aldolase_Class_I; cl17187 1305849003969 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 1305849003970 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1305849003971 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1305849003972 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1305849003973 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 1305849003974 dimer interface [polypeptide binding]; other site 1305849003975 conserved gate region; other site 1305849003976 putative PBP binding loops; other site 1305849003977 ABC-ATPase subunit interface; other site 1305849003978 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1305849003979 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 1305849003980 dimer interface [polypeptide binding]; other site 1305849003981 conserved gate region; other site 1305849003982 putative PBP binding loops; other site 1305849003983 ABC-ATPase subunit interface; other site 1305849003984 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1305849003985 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1305849003986 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1305849003987 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1305849003988 active site 1305849003989 Sulfate transporter family; Region: Sulfate_transp; cl19250 1305849003990 xanthine permease; Region: pbuX; TIGR03173 1305849003991 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1305849003992 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1305849003993 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1305849003994 NAD binding site [chemical binding]; other site 1305849003995 ATP-grasp domain; Region: ATP-grasp; pfam02222 1305849003996 adenylosuccinate lyase; Provisional; Region: PRK07492 1305849003997 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1305849003998 tetramer interface [polypeptide binding]; other site 1305849003999 active site 1305849004000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849004001 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849004002 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1305849004003 ATP binding site [chemical binding]; other site 1305849004004 active site 1305849004005 substrate binding site [chemical binding]; other site 1305849004006 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 1305849004007 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1305849004008 putative active site [active] 1305849004009 catalytic triad [active] 1305849004010 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1305849004011 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 1305849004012 dimerization interface [polypeptide binding]; other site 1305849004013 ATP binding site [chemical binding]; other site 1305849004014 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 1305849004015 dimerization interface [polypeptide binding]; other site 1305849004016 ATP binding site [chemical binding]; other site 1305849004017 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1305849004018 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 1305849004019 active site 1305849004020 tetramer interface [polypeptide binding]; other site 1305849004021 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1305849004022 active site 1305849004023 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1305849004024 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 1305849004025 dimerization interface [polypeptide binding]; other site 1305849004026 putative ATP binding site [chemical binding]; other site 1305849004027 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1305849004028 active site 1305849004029 substrate binding site [chemical binding]; other site 1305849004030 cosubstrate binding site; other site 1305849004031 catalytic site [active] 1305849004032 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1305849004033 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 1305849004034 purine monophosphate binding site [chemical binding]; other site 1305849004035 dimer interface [polypeptide binding]; other site 1305849004036 putative catalytic residues [active] 1305849004037 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1305849004038 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1305849004039 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1305849004040 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1305849004041 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1305849004042 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 1305849004043 active site 1305849004044 catalytic tetrad [active] 1305849004045 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 1305849004046 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 1305849004047 active site 1305849004048 phosphorylation site [posttranslational modification] 1305849004049 intermolecular recognition site; other site 1305849004050 dimerization interface [polypeptide binding]; other site 1305849004051 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849004052 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849004053 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1305849004054 Histidine kinase; Region: His_kinase; pfam06580 1305849004055 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 1305849004056 ATP binding site [chemical binding]; other site 1305849004057 Mg2+ binding site [ion binding]; other site 1305849004058 G-X-G motif; other site 1305849004059 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1305849004060 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1305849004061 putative ligand binding site [chemical binding]; other site 1305849004062 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1305849004063 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1305849004064 putative ligand binding site [chemical binding]; other site 1305849004065 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1305849004066 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1305849004067 Walker A/P-loop; other site 1305849004068 ATP binding site [chemical binding]; other site 1305849004069 Q-loop/lid; other site 1305849004070 ABC transporter signature motif; other site 1305849004071 Walker B; other site 1305849004072 D-loop; other site 1305849004073 H-loop/switch region; other site 1305849004074 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1305849004075 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1305849004076 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1305849004077 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1305849004078 TM-ABC transporter signature motif; other site 1305849004079 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1305849004080 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 1305849004081 active site 1305849004082 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 1305849004083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849004084 DNA-binding site [nucleotide binding]; DNA binding site 1305849004085 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 1305849004086 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849004087 homodimer interface [polypeptide binding]; other site 1305849004088 catalytic residue [active] 1305849004089 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1305849004090 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 1305849004091 tetramer interface [polypeptide binding]; other site 1305849004092 TPP-binding site [chemical binding]; other site 1305849004093 heterodimer interface [polypeptide binding]; other site 1305849004094 phosphorylation loop region [posttranslational modification] 1305849004095 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1305849004096 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 1305849004097 alpha subunit interface [polypeptide binding]; other site 1305849004098 TPP binding site [chemical binding]; other site 1305849004099 heterodimer interface [polypeptide binding]; other site 1305849004100 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1305849004101 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1305849004102 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 1305849004103 E3 interaction surface; other site 1305849004104 lipoyl attachment site [posttranslational modification]; other site 1305849004105 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 1305849004106 E3 interaction surface; other site 1305849004107 lipoyl attachment site [posttranslational modification]; other site 1305849004108 e3 binding domain; Region: E3_binding; pfam02817 1305849004109 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1305849004110 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1305849004111 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1305849004112 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849004113 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1305849004114 hypothetical protein; Provisional; Region: PRK04387 1305849004115 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1305849004116 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 1305849004117 active site 1305849004118 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1305849004119 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1305849004120 G1 box; other site 1305849004121 putative GEF interaction site [polypeptide binding]; other site 1305849004122 GTP/Mg2+ binding site [chemical binding]; other site 1305849004123 Switch I region; other site 1305849004124 G2 box; other site 1305849004125 G3 box; other site 1305849004126 Switch II region; other site 1305849004127 G4 box; other site 1305849004128 G5 box; other site 1305849004129 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 1305849004130 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 1305849004131 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1305849004132 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 1305849004133 ATP binding site [chemical binding]; other site 1305849004134 putative Mg++ binding site [ion binding]; other site 1305849004135 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 1305849004136 nucleotide binding region [chemical binding]; other site 1305849004137 ATP-binding site [chemical binding]; other site 1305849004138 RQC domain; Region: RQC; pfam09382 1305849004139 HRDC domain; Region: HRDC; pfam00570 1305849004140 Protein of unknown function (DUF1507); Region: DUF1507; pfam07408 1305849004141 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1305849004142 pyruvate carboxylase; Reviewed; Region: PRK12999 1305849004143 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1305849004144 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1305849004145 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1305849004146 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1305849004147 active site 1305849004148 catalytic residues [active] 1305849004149 metal binding site [ion binding]; metal-binding site 1305849004150 homodimer binding site [polypeptide binding]; other site 1305849004151 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 1305849004152 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 1305849004153 carboxyltransferase (CT) interaction site; other site 1305849004154 biotinylation site [posttranslational modification]; other site 1305849004155 Protein of unknown function (DUF964); Region: DUF964; pfam06133 1305849004156 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 1305849004157 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 1305849004158 S-adenosylmethionine binding site [chemical binding]; other site 1305849004159 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1305849004160 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1305849004161 active site 1305849004162 (T/H)XGH motif; other site 1305849004163 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1305849004164 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 1305849004165 protein binding site [polypeptide binding]; other site 1305849004166 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1305849004167 SLBB domain; Region: SLBB; pfam10531 1305849004168 comEA protein; Region: comE; TIGR01259 1305849004169 Helix-hairpin-helix motif; Region: HHH; pfam00633 1305849004170 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1305849004171 oxyanion hole [active] 1305849004172 SGNH_hydrolase, or GDSL_hydrolase, is 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; cl01053 1305849004173 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 1305849004174 catalytic motif [active] 1305849004175 Zn binding site [ion binding]; other site 1305849004176 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1305849004177 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1305849004178 Competence protein; Region: Competence; pfam03772 1305849004179 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1305849004180 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1305849004181 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1305849004182 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1305849004183 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1305849004184 Protein of unknown function (DUF441); Region: DUF441; pfam04284 1305849004185 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1305849004186 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849004187 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1305849004188 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1305849004189 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 1305849004190 catalytic core [active] 1305849004191 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1305849004192 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1305849004193 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1305849004194 DEAD_2; Region: DEAD_2; pfam06733 1305849004195 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1305849004196 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1305849004197 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1305849004198 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1305849004199 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1305849004200 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1305849004201 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1305849004202 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849004203 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1305849004204 Coenzyme A binding pocket [chemical binding]; other site 1305849004205 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1305849004206 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 1305849004207 Ligand Binding Site [chemical binding]; other site 1305849004208 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 1305849004209 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_C39A; cd02549 1305849004210 putative active site [active] 1305849004211 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 1305849004212 dimer interface [polypeptide binding]; other site 1305849004213 FMN binding site [chemical binding]; other site 1305849004214 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1305849004215 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 1305849004216 putative substrate translocation pore; other site 1305849004217 POT family; Region: PTR2; cl17359 1305849004218 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849004219 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849004220 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 1305849004221 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1305849004222 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1305849004223 Part of AAA domain; Region: AAA_19; pfam13245 1305849004224 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 1305849004225 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1305849004226 Predicted transcriptional regulators [Transcription]; Region: COG1733 1305849004227 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1305849004228 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1305849004229 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1305849004230 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 1305849004231 dimer interface [polypeptide binding]; other site 1305849004232 motif 1; other site 1305849004233 active site 1305849004234 motif 2; other site 1305849004235 motif 3; other site 1305849004236 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1305849004237 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 1305849004238 putative tRNA-binding site [nucleotide binding]; other site 1305849004239 B3/4 domain; Region: B3_4; pfam03483 1305849004240 tRNA synthetase B5 domain; Region: B5; smart00874 1305849004241 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 1305849004242 dimer interface [polypeptide binding]; other site 1305849004243 motif 1; other site 1305849004244 motif 3; other site 1305849004245 motif 2; other site 1305849004246 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1305849004247 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1305849004248 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1305849004249 active site 1305849004250 HIGH motif; other site 1305849004251 dimer interface [polypeptide binding]; other site 1305849004252 KMSKS motif; other site 1305849004253 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1305849004254 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1305849004255 Walker A/P-loop; other site 1305849004256 ATP binding site [chemical binding]; other site 1305849004257 Q-loop/lid; other site 1305849004258 ABC transporter signature motif; other site 1305849004259 Walker B; other site 1305849004260 D-loop; other site 1305849004261 H-loop/switch region; other site 1305849004262 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1305849004263 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 1305849004264 substrate binding pocket [chemical binding]; other site 1305849004265 membrane-bound complex binding site; other site 1305849004266 hinge residues; other site 1305849004267 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1305849004268 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 1305849004269 dimer interface [polypeptide binding]; other site 1305849004270 conserved gate region; other site 1305849004271 putative PBP binding loops; other site 1305849004272 ABC-ATPase subunit interface; other site 1305849004273 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 1305849004274 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 1305849004275 dimer interface [polypeptide binding]; other site 1305849004276 conserved gate region; other site 1305849004277 putative PBP binding loops; other site 1305849004278 ABC-ATPase subunit interface; other site 1305849004279 glutamate racemase; Provisional; Region: PRK00865 1305849004280 ribonuclease PH; Reviewed; Region: rph; PRK00173 1305849004281 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1305849004282 hexamer interface [polypeptide binding]; other site 1305849004283 active site 1305849004284 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 1305849004285 active site 1305849004286 dimerization interface [polypeptide binding]; other site 1305849004287 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1305849004288 active site 1305849004289 metal binding site [ion binding]; metal-binding site 1305849004290 homotetramer interface [polypeptide binding]; other site 1305849004291 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 1305849004292 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1305849004293 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1305849004294 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1305849004295 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 1305849004296 homodimer interface [polypeptide binding]; other site 1305849004297 substrate-cofactor binding pocket; other site 1305849004298 catalytic residue [active] 1305849004299 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1305849004300 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1305849004301 NAD binding site [chemical binding]; other site 1305849004302 homotetramer interface [polypeptide binding]; other site 1305849004303 homodimer interface [polypeptide binding]; other site 1305849004304 substrate binding site [chemical binding]; other site 1305849004305 active site 1305849004306 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 1305849004307 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 1305849004308 active site 1305849004309 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1305849004310 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849004311 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849004312 Integrase core domain; Region: rve; pfam00665 1305849004313 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1305849004314 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1305849004315 Eukaryotic protein of unknown function (DUF829); Region: DUF829; pfam05705 1305849004316 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1305849004317 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1305849004318 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1305849004319 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1305849004320 GTP1/OBG; Region: GTP1_OBG; pfam01018 1305849004321 Obg GTPase; Region: Obg; cd01898 1305849004322 G1 box; other site 1305849004323 GTP/Mg2+ binding site [chemical binding]; other site 1305849004324 Switch I region; other site 1305849004325 G2 box; other site 1305849004326 G3 box; other site 1305849004327 Switch II region; other site 1305849004328 G4 box; other site 1305849004329 G5 box; other site 1305849004330 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1305849004331 ribonuclease Z; Region: RNase_Z; TIGR02651 1305849004332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1305849004333 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1305849004334 NAD(P) binding site [chemical binding]; other site 1305849004335 active site 1305849004336 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1305849004337 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 1305849004338 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1305849004339 DHH family; Region: DHH; pfam01368 1305849004340 DHHA1 domain; Region: DHHA1; pfam02272 1305849004341 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 1305849004342 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1305849004343 active site 1305849004344 LexA repressor; Validated; Region: PRK00215 1305849004345 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 1305849004346 putative DNA binding site [nucleotide binding]; other site 1305849004347 putative Zn2+ binding site [ion binding]; other site 1305849004348 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 1305849004349 Catalytic site [active] 1305849004350 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 1305849004351 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1305849004352 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 1305849004353 TPP-binding site [chemical binding]; other site 1305849004354 dimer interface [polypeptide binding]; other site 1305849004355 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 1305849004356 PYR/PP interface [polypeptide binding]; other site 1305849004357 dimer interface [polypeptide binding]; other site 1305849004358 TPP binding site [chemical binding]; other site 1305849004359 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1305849004360 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849004361 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849004362 Integrase core domain; Region: rve; pfam00665 1305849004363 Integrase core domain; Region: rve_3; cl15866 1305849004364 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1305849004365 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1305849004366 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1305849004367 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 1305849004368 dimer interface [polypeptide binding]; other site 1305849004369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849004370 catalytic residue [active] 1305849004371 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1305849004372 metal binding site 2 [ion binding]; metal-binding site 1305849004373 putative DNA binding helix; other site 1305849004374 metal binding site 1 [ion binding]; metal-binding site 1305849004375 dimer interface [polypeptide binding]; other site 1305849004376 structural Zn2+ binding site [ion binding]; other site 1305849004377 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1305849004378 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849004379 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849004380 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 1305849004381 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1305849004382 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 1305849004383 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 1305849004384 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1305849004385 putative substrate translocation pore; other site 1305849004386 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1305849004387 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1305849004388 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1305849004389 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1305849004390 minor groove reading motif; other site 1305849004391 helix-hairpin-helix signature motif; other site 1305849004392 substrate binding pocket [chemical binding]; other site 1305849004393 active site 1305849004394 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1305849004395 Transglycosylase; Region: Transgly; pfam00912 1305849004396 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1305849004397 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1305849004398 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1305849004399 hypothetical protein; Provisional; Region: PRK13660 1305849004400 cell division protein GpsB; Provisional; Region: PRK14127 1305849004401 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 1305849004402 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1305849004403 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1305849004404 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 1305849004405 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1305849004406 active site 1305849004407 Zn binding site [ion binding]; other site 1305849004408 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1305849004409 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1305849004410 Zn2+ binding site [ion binding]; other site 1305849004411 Mg2+ binding site [ion binding]; other site 1305849004412 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1305849004413 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1305849004414 substrate-cofactor binding pocket; other site 1305849004415 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849004416 catalytic residue [active] 1305849004417 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1305849004418 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 1305849004419 NAD binding site [chemical binding]; other site 1305849004420 homodimer interface [polypeptide binding]; other site 1305849004421 active site 1305849004422 putative substrate binding site [chemical binding]; other site 1305849004423 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 1305849004424 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1305849004425 VanZ like family; Region: VanZ; cl01971 1305849004426 RDD family; Region: RDD; pfam06271 1305849004427 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1305849004428 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 1305849004429 ATP binding site [chemical binding]; other site 1305849004430 Mg++ binding site [ion binding]; other site 1305849004431 motif III; other site 1305849004432 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 1305849004433 nucleotide binding region [chemical binding]; other site 1305849004434 ATP-binding site [chemical binding]; other site 1305849004435 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1305849004436 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849004437 Coenzyme A binding pocket [chemical binding]; other site 1305849004438 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1305849004439 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 1305849004440 motif 1; other site 1305849004441 active site 1305849004442 motif 2; other site 1305849004443 motif 3; other site 1305849004444 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1305849004445 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1305849004446 DHHA1 domain; Region: DHHA1; pfam02272 1305849004447 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1305849004448 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1305849004449 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1305849004450 RNAse HI family that includes archaeal, some bacterial as well as plant RNase HI; Region: RNase_HI_like; cd09279 1305849004451 RNA/DNA hybrid binding site [nucleotide binding]; other site 1305849004452 active site 1305849004453 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1305849004454 DNA-binding site [nucleotide binding]; DNA binding site 1305849004455 RNA-binding motif; other site 1305849004456 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 1305849004457 Potassium binding sites [ion binding]; other site 1305849004458 Cesium cation binding sites [ion binding]; other site 1305849004459 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; cd02205 1305849004460 lipoprotein signal peptidase; Provisional; Region: PRK14797 1305849004461 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1305849004462 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 1305849004463 RNA binding surface [nucleotide binding]; other site 1305849004464 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1305849004465 active site 1305849004466 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1305849004467 active site 1305849004468 uracil transporter; Provisional; Region: PRK10720 1305849004469 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1305849004470 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1305849004471 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1305849004472 dihydroorotase; Validated; Region: pyrC; PRK09357 1305849004473 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 1305849004474 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 1305849004475 active site 1305849004476 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1305849004477 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1305849004478 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1305849004479 catalytic site [active] 1305849004480 subunit interface [polypeptide binding]; other site 1305849004481 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1305849004482 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1305849004483 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1305849004484 Carbamoyl-phosphate synthetase large chain, oligomerization domain; Region: CPSase_L_D3; pfam02787 1305849004485 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1305849004486 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1305849004487 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 1305849004488 IMP binding site; other site 1305849004489 dimer interface [polypeptide binding]; other site 1305849004490 interdomain contacts; other site 1305849004491 partial ornithine binding site; other site 1305849004492 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1305849004493 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 1305849004494 FAD binding pocket [chemical binding]; other site 1305849004495 FAD binding motif [chemical binding]; other site 1305849004496 phosphate binding motif [ion binding]; other site 1305849004497 beta-alpha-beta structure motif; other site 1305849004498 NAD binding pocket [chemical binding]; other site 1305849004499 Iron coordination center [ion binding]; other site 1305849004500 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1305849004501 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 1305849004502 heterodimer interface [polypeptide binding]; other site 1305849004503 active site 1305849004504 FMN binding site [chemical binding]; other site 1305849004505 homodimer interface [polypeptide binding]; other site 1305849004506 substrate binding site [chemical binding]; other site 1305849004507 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 1305849004508 active site 1305849004509 dimer interface [polypeptide binding]; other site 1305849004510 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1305849004511 active site 1305849004512 HD domain; Region: HD_3; cl17350 1305849004513 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1305849004514 active site 1305849004515 zinc binding site [ion binding]; other site 1305849004516 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1305849004517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1305849004518 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 1305849004519 dimerization interface [polypeptide binding]; other site 1305849004520 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1305849004521 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1305849004522 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1305849004523 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 1305849004524 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1305849004525 zinc binding site [ion binding]; other site 1305849004526 putative ligand binding site [chemical binding]; other site 1305849004527 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1305849004528 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 1305849004529 TM-ABC transporter signature motif; other site 1305849004530 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1305849004531 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849004532 Walker A/P-loop; other site 1305849004533 ATP binding site [chemical binding]; other site 1305849004534 Q-loop/lid; other site 1305849004535 ABC transporter signature motif; other site 1305849004536 Walker B; other site 1305849004537 D-loop; other site 1305849004538 H-loop/switch region; other site 1305849004539 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1305849004540 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1305849004541 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1305849004542 shikimate binding site; other site 1305849004543 NAD(P) binding site [chemical binding]; other site 1305849004544 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1305849004545 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1305849004546 dimer interface [polypeptide binding]; other site 1305849004547 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1305849004548 active site 1305849004549 putative interdomain interaction site [polypeptide binding]; other site 1305849004550 putative metal-binding site [ion binding]; other site 1305849004551 putative nucleotide binding site [chemical binding]; other site 1305849004552 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; cl11986 1305849004553 domain I; other site 1305849004554 DNA binding groove [nucleotide binding] 1305849004555 phosphate binding site [ion binding]; other site 1305849004556 domain III; other site 1305849004557 catalytic site [active] 1305849004558 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; cl11986 1305849004559 domain II; other site 1305849004560 domain IV; other site 1305849004561 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1305849004562 putative addiction module antidote; Region: doc_partner; TIGR02609 1305849004563 Fic/DOC family; Region: Fic; cl00960 1305849004564 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1305849004565 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1305849004566 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1305849004567 NAD binding site [chemical binding]; other site 1305849004568 dimer interface [polypeptide binding]; other site 1305849004569 substrate binding site [chemical binding]; other site 1305849004570 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1305849004571 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1305849004572 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849004573 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 1305849004574 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1305849004575 putative substrate translocation pore; other site 1305849004576 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 1305849004577 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1305849004578 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 1305849004579 active site 1305849004580 P-loop; other site 1305849004581 phosphorylation site [posttranslational modification] 1305849004582 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1305849004583 PRD domain; Region: PRD; pfam00874 1305849004584 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 1305849004585 active site 1305849004586 P-loop; other site 1305849004587 phosphorylation site [posttranslational modification] 1305849004588 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 1305849004589 active site 1305849004590 phosphorylation site [posttranslational modification] 1305849004591 putative oxidoreductase; Provisional; Region: PRK10206 1305849004592 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1305849004593 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1305849004594 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1305849004595 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1305849004596 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 1305849004597 putative active site [active] 1305849004598 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 1305849004599 active site 1305849004600 catalytic site [active] 1305849004601 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1305849004602 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849004603 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1305849004604 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1305849004605 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849004606 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1305849004607 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 1305849004608 metal ion-dependent adhesion site (MIDAS); other site 1305849004609 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1305849004610 domain interaction interfaces [polypeptide binding]; other site 1305849004611 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849004612 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849004613 HTH domain; Region: HTH_11; pfam08279 1305849004614 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849004615 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 1305849004616 active site 1305849004617 P-loop; other site 1305849004618 phosphorylation site [posttranslational modification] 1305849004619 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1305849004620 Bacterial regulatory proteins, tetR family; Region: TetR_N; cl19382 1305849004621 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1305849004622 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1305849004623 Walker A/P-loop; other site 1305849004624 ATP binding site [chemical binding]; other site 1305849004625 Q-loop/lid; other site 1305849004626 ABC transporter signature motif; other site 1305849004627 Walker B; other site 1305849004628 D-loop; other site 1305849004629 H-loop/switch region; other site 1305849004630 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1305849004631 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1305849004632 FtsX-like permease family; Region: FtsX; pfam02687 1305849004633 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1305849004634 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 1305849004635 active site 1305849004636 phosphorylation site [posttranslational modification] 1305849004637 intermolecular recognition site; other site 1305849004638 dimerization interface [polypeptide binding]; other site 1305849004639 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 1305849004640 DNA binding site [nucleotide binding] 1305849004641 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1305849004642 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 1305849004643 dimer interface [polypeptide binding]; other site 1305849004644 phosphorylation site [posttranslational modification] 1305849004645 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 1305849004646 ATP binding site [chemical binding]; other site 1305849004647 Mg2+ binding site [ion binding]; other site 1305849004648 G-X-G motif; other site 1305849004649 Heat induced stress protein YflT; Region: YflT; pfam11181 1305849004650 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 1305849004651 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1305849004652 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 1305849004653 active site 1305849004654 catalytic residues [active] 1305849004655 Int/Topo IB signature motif; other site 1305849004656 DNA binding site [nucleotide binding] 1305849004657 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1305849004658 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1305849004659 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1305849004660 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1305849004661 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1305849004662 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1305849004663 acyl-activating enzyme (AAE) consensus motif; other site 1305849004664 AMP binding site [chemical binding]; other site 1305849004665 active site 1305849004666 CoA binding site [chemical binding]; other site 1305849004667 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 1305849004668 dimer interface [polypeptide binding]; other site 1305849004669 substrate binding site [chemical binding]; other site 1305849004670 ATP binding site [chemical binding]; other site 1305849004671 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 1305849004672 Protein of unknown function (DUF436); Region: DUF436; pfam04260 1305849004673 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1305849004674 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 1305849004675 Ca binding site [ion binding]; other site 1305849004676 active site 1305849004677 catalytic site [active] 1305849004678 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; cl18944 1305849004679 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1305849004680 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1305849004681 metal ion-dependent adhesion site (MIDAS); other site 1305849004682 EDD domain protein, DegV family; Region: DegV; TIGR00762 1305849004683 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1305849004684 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1305849004685 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1305849004686 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1305849004687 AzlC protein; Region: AzlC; pfam03591 1305849004688 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1305849004689 Cation efflux family; Region: Cation_efflux; pfam01545 1305849004690 Domain of unknown function (DUF4430); Region: DUF4430; pfam14478 1305849004691 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1305849004692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 1305849004693 Domain of unknown function (DUF1846); Region: DUF1846; pfam08903 1305849004694 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1305849004695 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1305849004696 Nucleoside recognition; Region: Gate; pfam07670 1305849004697 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1305849004698 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 1305849004699 Guanylate kinase; Region: Guanylate_kin; pfam00625 1305849004700 active site 1305849004701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849004702 Coenzyme A binding pocket [chemical binding]; other site 1305849004703 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 1305849004704 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 1305849004705 putative PBP binding loops; other site 1305849004706 dimer interface [polypeptide binding]; other site 1305849004707 ABC-ATPase subunit interface; other site 1305849004708 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 1305849004709 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1305849004710 substrate binding pocket [chemical binding]; other site 1305849004711 membrane-bound complex binding site; other site 1305849004712 hinge residues; other site 1305849004713 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl18951 1305849004714 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 1305849004715 active site 1305849004716 FMN binding site [chemical binding]; other site 1305849004717 substrate binding site [chemical binding]; other site 1305849004718 catalytic residues [active] 1305849004719 homodimer interface [polypeptide binding]; other site 1305849004720 Predicted membrane protein [Function unknown]; Region: COG3212 1305849004721 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1305849004722 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1305849004723 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 1305849004724 S-adenosylmethionine binding site [chemical binding]; other site 1305849004725 Predicted integral membrane protein [Function unknown]; Region: COG5521 1305849004726 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1305849004727 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 1305849004728 dimer interface [polypeptide binding]; other site 1305849004729 conserved gate region; other site 1305849004730 putative PBP binding loops; other site 1305849004731 ABC-ATPase subunit interface; other site 1305849004732 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 1305849004733 dimer interface [polypeptide binding]; other site 1305849004734 conserved gate region; other site 1305849004735 putative PBP binding loops; other site 1305849004736 ABC-ATPase subunit interface; other site 1305849004737 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1305849004738 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1305849004739 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1305849004740 active site 1305849004741 homodimer interface [polypeptide binding]; other site 1305849004742 catalytic site [active] 1305849004743 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1305849004744 homodimer interface [polypeptide binding]; other site 1305849004745 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1305849004746 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1305849004747 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1305849004748 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1305849004749 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1305849004750 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 1305849004751 active site 1305849004752 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1305849004753 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1305849004754 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1305849004755 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1305849004756 Ebola nucleoprotein; Region: Ebola_NP; pfam05505 1305849004757 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849004758 mannonate dehydratase; Provisional; Region: PRK03906 1305849004759 D-mannonate dehydratase (UxuA); Region: UxuA; pfam03786 1305849004760 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1305849004761 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1305849004762 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1305849004763 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1305849004764 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849004765 DNA-binding site [nucleotide binding]; DNA binding site 1305849004766 FCD domain; Region: FCD; pfam07729 1305849004767 peroxiredoxin; Region: AhpC; TIGR03137 1305849004768 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1305849004769 dimer interface [polypeptide binding]; other site 1305849004770 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1305849004771 catalytic triad [active] 1305849004772 peroxidatic and resolving cysteines [active] 1305849004773 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1305849004774 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1305849004775 catalytic residue [active] 1305849004776 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1305849004777 catalytic residues [active] 1305849004778 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849004779 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849004780 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 1305849004781 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 1305849004782 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1305849004783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 1305849004784 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 1305849004785 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1305849004786 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 1305849004787 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1305849004788 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1305849004789 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1305849004790 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1305849004791 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 1305849004792 putative active site cavity [active] 1305849004793 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 1305849004794 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 1305849004795 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1305849004796 TPP-binding site; other site 1305849004797 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 1305849004798 PYR/PP interface [polypeptide binding]; other site 1305849004799 dimer interface [polypeptide binding]; other site 1305849004800 TPP binding site [chemical binding]; other site 1305849004801 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1305849004802 glutaminase A; Region: Gln_ase; TIGR03814 1305849004803 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 1305849004804 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1305849004805 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 1305849004806 putative catalytic residues [active] 1305849004807 catalytic nucleophile [active] 1305849004808 Recombinase; Region: Recombinase; pfam07508 1305849004809 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1305849004810 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 1305849004811 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 1305849004812 non-specific DNA binding site [nucleotide binding]; other site 1305849004813 salt bridge; other site 1305849004814 sequence-specific DNA binding site [nucleotide binding]; other site 1305849004815 Replication initiation factor; Region: Rep_trans; pfam02486 1305849004816 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1305849004817 Protein of unknown function (DUF3781); Region: DUF3781; pfam12636 1305849004818 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1305849004819 folate binding site [chemical binding]; other site 1305849004820 NADP+ binding site [chemical binding]; other site 1305849004821 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 1305849004822 folate binding site [chemical binding]; other site 1305849004823 NADP+ binding site [chemical binding]; other site 1305849004824 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 1305849004825 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1305849004826 Predicted membrane protein [Function unknown]; Region: COG2261 1305849004827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1305849004828 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 1305849004829 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 1305849004830 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1305849004831 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 1305849004832 sequence-specific DNA binding site [nucleotide binding]; other site 1305849004833 salt bridge; other site 1305849004834 Predicted membrane protein [Function unknown]; Region: COG2261 1305849004835 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1305849004836 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 1305849004837 oxidoreductase; Provisional; Region: PRK07985 1305849004838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1305849004839 NAD(P) binding site [chemical binding]; other site 1305849004840 active site 1305849004841 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1305849004842 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1305849004843 Cl binding site [ion binding]; other site 1305849004844 oligomer interface [polypeptide binding]; other site 1305849004845 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; pfam01521 1305849004846 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1305849004847 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1305849004848 Ligand binding site; other site 1305849004849 metal-binding site 1305849004850 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1305849004851 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1305849004852 Ligand binding site; other site 1305849004853 metal-binding site 1305849004854 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 1305849004855 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1305849004856 active site 1305849004857 motif I; other site 1305849004858 motif II; other site 1305849004859 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 1305849004860 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 1305849004861 catalytic triad [active] 1305849004862 conserved cis-peptide bond; other site 1305849004863 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 1305849004864 non-specific DNA binding site [nucleotide binding]; other site 1305849004865 salt bridge; other site 1305849004866 sequence-specific DNA binding site [nucleotide binding]; other site 1305849004867 conserved hypothetical protein; Region: TIGR02328 1305849004868 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1305849004869 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849004870 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849004871 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1305849004872 DNA-binding site [nucleotide binding]; DNA binding site 1305849004873 RNA-binding motif; other site 1305849004874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849004875 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 1305849004876 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849004877 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849004878 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1305849004879 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 1305849004880 motif II; other site 1305849004881 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1305849004882 D-mannonate dehydratase (UxuA); Region: UxuA; pfam03786 1305849004883 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 1305849004884 active pocket/dimerization site; other site 1305849004885 active site 1305849004886 phosphorylation site [posttranslational modification] 1305849004887 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1305849004888 active site 1305849004889 phosphorylation site [posttranslational modification] 1305849004890 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1305849004891 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1305849004892 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 1305849004893 putative active site [active] 1305849004894 metal binding site [ion binding]; metal-binding site 1305849004895 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1305849004896 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_12; cd12177 1305849004897 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1305849004898 putative ligand binding site [chemical binding]; other site 1305849004899 putative NAD binding site [chemical binding]; other site 1305849004900 catalytic site [active] 1305849004901 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1305849004902 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1305849004903 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1305849004904 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1305849004905 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 1305849004906 putative active site [active] 1305849004907 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 1305849004908 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 1305849004909 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1305849004910 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1305849004911 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 1305849004912 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1305849004913 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1305849004914 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 1305849004915 catalytic triad [active] 1305849004916 conserved cis-peptide bond; other site 1305849004917 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 1305849004918 putative catalytic residues [active] 1305849004919 thiol/disulfide switch; other site 1305849004920 CAAX protease self-immunity; Region: Abi; pfam02517 1305849004921 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 1305849004922 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1305849004923 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1305849004924 active site 1305849004925 intersubunit interactions; other site 1305849004926 catalytic residue [active] 1305849004927 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 1305849004928 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1305849004929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1305849004930 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1305849004931 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 1305849004932 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1305849004933 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1305849004934 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 1305849004935 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 1305849004936 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1305849004937 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849004938 PRD domain; Region: PRD; pfam00874 1305849004939 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 1305849004940 active site 1305849004941 P-loop; other site 1305849004942 phosphorylation site [posttranslational modification] 1305849004943 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 1305849004944 active site 1305849004945 phosphorylation site [posttranslational modification] 1305849004946 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 1305849004947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1305849004948 NAD(P) binding site [chemical binding]; other site 1305849004949 active site 1305849004950 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1305849004951 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 1305849004952 putative dimer interface [polypeptide binding]; other site 1305849004953 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1305849004954 MULE transposase domain; Region: MULE; pfam10551 1305849004955 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849004956 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849004957 Homeodomain-like domain; Region: HTH_32; pfam13565 1305849004958 Integrase core domain; Region: rve; pfam00665 1305849004959 Integrase core domain; Region: rve_3; cl15866 1305849004960 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1305849004961 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 1305849004962 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 1305849004963 Int/Topo IB signature motif; other site 1305849004964 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 1305849004965 active site 1305849004966 Int/Topo IB signature motif; other site 1305849004967 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 1305849004968 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1305849004969 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 1305849004970 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 1305849004971 Helix-turn-helix domain; Region: HTH_16; pfam12645 1305849004972 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1305849004973 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 1305849004974 DNA binding residues [nucleotide binding] 1305849004975 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1305849004976 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1305849004977 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1305849004978 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1305849004979 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1305849004980 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1305849004981 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 1305849004982 motif II; other site 1305849004983 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1305849004984 MFS/sugar transport protein; Region: MFS_2; pfam13347 1305849004985 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 1305849004986 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1305849004987 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1305849004988 active site 1305849004989 intersubunit interface [polypeptide binding]; other site 1305849004990 catalytic residue [active] 1305849004991 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1305849004992 Glucuronate isomerase; Region: UxaC; pfam02614 1305849004993 mannonate dehydratase; Provisional; Region: PRK03906 1305849004994 mannonate dehydratase; Region: uxuA; TIGR00695 1305849004995 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1305849004996 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1305849004997 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1305849004998 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1305849004999 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849005000 DNA-binding site [nucleotide binding]; DNA binding site 1305849005001 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1305849005002 CHAP domain; Region: CHAP; cl17642 1305849005003 AAA-like domain; Region: AAA_10; pfam12846 1305849005004 TcpE family; Region: TcpE; pfam12648 1305849005005 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 1305849005006 Helix-turn-helix domain; Region: HTH_31; pfam13560 1305849005007 Replication initiation factor; Region: Rep_trans; pfam02486 1305849005008 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1305849005009 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849005010 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849005011 YopX protein; Region: YopX; cl09859 1305849005012 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 1305849005013 non-specific DNA binding site [nucleotide binding]; other site 1305849005014 salt bridge; other site 1305849005015 sequence-specific DNA binding site [nucleotide binding]; other site 1305849005016 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 1305849005017 non-specific DNA binding site [nucleotide binding]; other site 1305849005018 salt bridge; other site 1305849005019 sequence-specific DNA binding site [nucleotide binding]; other site 1305849005020 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 1305849005021 non-specific DNA binding site [nucleotide binding]; other site 1305849005022 salt bridge; other site 1305849005023 sequence-specific DNA binding site [nucleotide binding]; other site 1305849005024 GTP-binding protein LepA; Provisional; Region: PRK05433 1305849005025 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1305849005026 G1 box; other site 1305849005027 putative GEF interaction site [polypeptide binding]; other site 1305849005028 GTP/Mg2+ binding site [chemical binding]; other site 1305849005029 Switch I region; other site 1305849005030 G2 box; other site 1305849005031 G3 box; other site 1305849005032 Switch II region; other site 1305849005033 G4 box; other site 1305849005034 G5 box; other site 1305849005035 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 1305849005036 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 1305849005037 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1305849005038 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1305849005039 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 1305849005040 Sterol carrier protein domain; Region: SCP2_2; pfam13530 1305849005041 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 1305849005042 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1305849005043 Clp amino terminal domain; Region: Clp_N; pfam02861 1305849005044 Clp amino terminal domain; Region: Clp_N; pfam02861 1305849005045 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 1305849005046 Walker A motif; other site 1305849005047 ATP binding site [chemical binding]; other site 1305849005048 Walker B motif; other site 1305849005049 arginine finger; other site 1305849005050 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 1305849005051 Walker A motif; other site 1305849005052 ATP binding site [chemical binding]; other site 1305849005053 Walker B motif; other site 1305849005054 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1305849005055 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1305849005056 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1305849005057 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1305849005058 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1305849005059 peptidase T; Region: peptidase-T; TIGR01882 1305849005060 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1305849005061 metal binding site [ion binding]; metal-binding site 1305849005062 dimer interface [polypeptide binding]; other site 1305849005063 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1305849005064 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1305849005065 NLPA lipoprotein; Region: Lipoprotein_9; cl19159 1305849005066 primosomal protein DnaI; Reviewed; Region: PRK08939 1305849005067 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1305849005068 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 1305849005069 Walker A motif; other site 1305849005070 ATP binding site [chemical binding]; other site 1305849005071 Walker B motif; other site 1305849005072 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1305849005073 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1305849005074 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1305849005075 ATP cone domain; Region: ATP-cone; pfam03477 1305849005076 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849005077 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849005078 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1305849005079 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1305849005080 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 1305849005081 CoA-binding site [chemical binding]; other site 1305849005082 ATP-binding [chemical binding]; other site 1305849005083 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1305849005084 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1305849005085 DNA binding site [nucleotide binding] 1305849005086 catalytic residue [active] 1305849005087 H2TH interface [polypeptide binding]; other site 1305849005088 putative catalytic residues [active] 1305849005089 turnover-facilitating residue; other site 1305849005090 intercalation triad [nucleotide binding]; other site 1305849005091 8OG recognition residue [nucleotide binding]; other site 1305849005092 putative reading head residues; other site 1305849005093 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1305849005094 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1305849005095 DNA polymerase I; Provisional; Region: PRK05755 1305849005096 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1305849005097 active site 1305849005098 metal binding site 1 [ion binding]; metal-binding site 1305849005099 putative 5' ssDNA interaction site; other site 1305849005100 metal binding site 3; metal-binding site 1305849005101 metal binding site 2 [ion binding]; metal-binding site 1305849005102 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1305849005103 putative DNA binding site [nucleotide binding]; other site 1305849005104 putative metal binding site [ion binding]; other site 1305849005105 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 1305849005106 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1305849005107 active site 1305849005108 DNA binding site [nucleotide binding] 1305849005109 catalytic site [active] 1305849005110 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1305849005111 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1305849005112 active site 2 [active] 1305849005113 active site 1 [active] 1305849005114 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1305849005115 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1305849005116 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1305849005117 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1305849005118 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1305849005119 putative active site [active] 1305849005120 hypothetical protein; Provisional; Region: PRK04351 1305849005121 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1305849005122 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1305849005123 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1305849005124 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 1305849005125 RNA binding site [nucleotide binding]; other site 1305849005126 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1305849005127 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 1305849005128 active site 1305849005129 metal binding site [ion binding]; metal-binding site 1305849005130 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1305849005131 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1305849005132 active site residue [active] 1305849005133 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 1305849005134 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 1305849005135 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849005136 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849005137 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849005138 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 1305849005139 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1305849005140 active site 1305849005141 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1305849005142 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 1305849005143 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1305849005144 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 1305849005145 motif II; other site 1305849005146 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 1305849005147 catalytic core [active] 1305849005148 Transcription elongation factor Elf1 like; Region: Elf1; cl02038 1305849005149 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1305849005150 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 1305849005151 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 1305849005152 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1305849005153 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 1305849005154 dimer interface [polypeptide binding]; other site 1305849005155 conserved gate region; other site 1305849005156 putative PBP binding loops; other site 1305849005157 ABC-ATPase subunit interface; other site 1305849005158 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 1305849005159 dimer interface [polypeptide binding]; other site 1305849005160 conserved gate region; other site 1305849005161 putative PBP binding loops; other site 1305849005162 ABC-ATPase subunit interface; other site 1305849005163 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1305849005164 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1305849005165 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 1305849005166 active site 1305849005167 phosphorylation site [posttranslational modification] 1305849005168 intermolecular recognition site; other site 1305849005169 dimerization interface [polypeptide binding]; other site 1305849005170 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849005171 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1305849005172 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849005173 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1305849005174 Histidine kinase; Region: His_kinase; pfam06580 1305849005175 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 1305849005176 ATP binding site [chemical binding]; other site 1305849005177 Mg2+ binding site [ion binding]; other site 1305849005178 G-X-G motif; other site 1305849005179 prephenate dehydratase; Provisional; Region: PRK11898 1305849005180 Prephenate dehydratase; Region: PDT; pfam00800 1305849005181 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 1305849005182 putative L-Phe binding site [chemical binding]; other site 1305849005183 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1305849005184 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 1305849005185 ADP binding site [chemical binding]; other site 1305849005186 magnesium binding site [ion binding]; other site 1305849005187 putative shikimate binding site; other site 1305849005188 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1305849005189 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 1305849005190 hinge; other site 1305849005191 active site 1305849005192 prephenate dehydrogenase; Validated; Region: PRK06545 1305849005193 prephenate dehydrogenase; Validated; Region: PRK08507 1305849005194 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 1305849005195 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1305849005196 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1305849005197 Tetramer interface [polypeptide binding]; other site 1305849005198 active site 1305849005199 FMN-binding site [chemical binding]; other site 1305849005200 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1305849005201 active site 1305849005202 dimer interface [polypeptide binding]; other site 1305849005203 metal binding site [ion binding]; metal-binding site 1305849005204 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1305849005205 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 1305849005206 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1305849005207 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1305849005208 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1305849005209 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1305849005210 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1305849005211 Melibiase; Region: Melibiase; pfam02065 1305849005212 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849005213 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849005214 DNA binding site [nucleotide binding] 1305849005215 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1305849005216 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 1305849005217 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1305849005218 TRAM domain; Region: TRAM; cl01282 1305849005219 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1305849005220 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 1305849005221 S-adenosylmethionine binding site [chemical binding]; other site 1305849005222 putative lipid kinase; Reviewed; Region: PRK13055 1305849005223 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1305849005224 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1305849005225 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1305849005226 GatB domain; Region: GatB_Yqey; smart00845 1305849005227 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1305849005228 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1305849005229 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1305849005230 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1305849005231 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 1305849005232 nucleotide binding pocket [chemical binding]; other site 1305849005233 K-X-D-G motif; other site 1305849005234 catalytic site [active] 1305849005235 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1305849005236 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1305849005237 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 1305849005238 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1305849005239 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 1305849005240 Dimer interface [polypeptide binding]; other site 1305849005241 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1305849005242 Part of AAA domain; Region: AAA_19; pfam13245 1305849005243 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 1305849005244 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 1305849005245 Cl- selectivity filter; other site 1305849005246 Cl- binding residues [ion binding]; other site 1305849005247 pore gating glutamate residue; other site 1305849005248 dimer interface [polypeptide binding]; other site 1305849005249 H+/Cl- coupling transport residue; other site 1305849005250 TrkA-C domain; Region: TrkA_C; pfam02080 1305849005251 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1305849005252 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 1305849005253 active site 1305849005254 phosphorylation site [posttranslational modification] 1305849005255 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 1305849005256 active site 1305849005257 P-loop; other site 1305849005258 phosphorylation site [posttranslational modification] 1305849005259 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1305849005260 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 1305849005261 putative substrate binding site [chemical binding]; other site 1305849005262 putative ATP binding site [chemical binding]; other site 1305849005263 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1305849005264 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1305849005265 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1305849005266 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1305849005267 G1 box; other site 1305849005268 GTP/Mg2+ binding site [chemical binding]; other site 1305849005269 Switch I region; other site 1305849005270 G2 box; other site 1305849005271 G3 box; other site 1305849005272 Switch II region; other site 1305849005273 G4 box; other site 1305849005274 G5 box; other site 1305849005275 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1305849005276 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1305849005277 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 1305849005278 Walker A motif; other site 1305849005279 ATP binding site [chemical binding]; other site 1305849005280 Walker B motif; other site 1305849005281 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1305849005282 trigger factor; Provisional; Region: tig; PRK01490 1305849005283 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1305849005284 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1305849005285 RDD family; Region: RDD; pfam06271 1305849005286 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1305849005287 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1305849005288 tandem repeat interface [polypeptide binding]; other site 1305849005289 oligomer interface [polypeptide binding]; other site 1305849005290 active site residues [active] 1305849005291 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1305849005292 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 1305849005293 glutaminase active site [active] 1305849005294 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 1305849005295 dimer interface [polypeptide binding]; other site 1305849005296 active site 1305849005297 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 1305849005298 dimer interface [polypeptide binding]; other site 1305849005299 active site 1305849005300 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1305849005301 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 1305849005302 active site 1305849005303 substrate binding site [chemical binding]; other site 1305849005304 metal binding site [ion binding]; metal-binding site 1305849005305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1305849005306 YbbR-like protein; Region: YbbR; pfam07949 1305849005307 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1305849005308 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1305849005309 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1305849005310 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1305849005311 dimer interface [polypeptide binding]; other site 1305849005312 PYR/PP interface [polypeptide binding]; other site 1305849005313 TPP binding site [chemical binding]; other site 1305849005314 substrate binding site [chemical binding]; other site 1305849005315 Sen15 protein; Region: Sen15; cl09847 1305849005316 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1305849005317 Domain of unknown function; Region: EKR; pfam10371 1305849005318 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1305849005319 4Fe-4S binding domain; Region: Fer4; pfam00037 1305849005320 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1305849005321 TPP-binding site [chemical binding]; other site 1305849005322 dimer interface [polypeptide binding]; other site 1305849005323 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849005324 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849005325 Homeodomain-like domain; Region: HTH_32; pfam13565 1305849005326 Integrase core domain; Region: rve; pfam00665 1305849005327 Integrase core domain; Region: rve_3; cl15866 1305849005328 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1305849005329 Thioredoxin; Region: Thioredoxin_4; pfam13462 1305849005330 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849005331 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849005332 Integrase core domain; Region: rve; pfam00665 1305849005333 tandem five-transmembrane protein; Region: Gpos_tandem_5TM; TIGR01218 1305849005334 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1305849005335 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1305849005336 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1305849005337 phosphate binding site [ion binding]; other site 1305849005338 putative substrate binding pocket [chemical binding]; other site 1305849005339 dimer interface [polypeptide binding]; other site 1305849005340 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1305849005341 aspartate racemase; Region: asp_race; TIGR00035 1305849005342 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 1305849005343 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1305849005344 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1305849005345 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1305849005346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849005347 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1305849005348 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1305849005349 excinuclease ABC subunit B; Provisional; Region: PRK05298 1305849005350 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 1305849005351 ATP binding site [chemical binding]; other site 1305849005352 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 1305849005353 nucleotide binding region [chemical binding]; other site 1305849005354 ATP-binding site [chemical binding]; other site 1305849005355 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1305849005356 UvrB/uvrC motif; Region: UVR; pfam02151 1305849005357 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 1305849005358 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1305849005359 substrate binding pocket [chemical binding]; other site 1305849005360 membrane-bound complex binding site; other site 1305849005361 hinge residues; other site 1305849005362 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 1305849005363 dimer interface [polypeptide binding]; other site 1305849005364 conserved gate region; other site 1305849005365 ABC-ATPase subunit interface; other site 1305849005366 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1305849005367 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1305849005368 Walker A/P-loop; other site 1305849005369 ATP binding site [chemical binding]; other site 1305849005370 Q-loop/lid; other site 1305849005371 ABC transporter signature motif; other site 1305849005372 Walker B; other site 1305849005373 D-loop; other site 1305849005374 H-loop/switch region; other site 1305849005375 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1305849005376 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1305849005377 chaperone protein DnaJ; Provisional; Region: PRK14276 1305849005378 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 1305849005379 HSP70 interaction site [polypeptide binding]; other site 1305849005380 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1305849005381 substrate binding site [polypeptide binding]; other site 1305849005382 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1305849005383 Zn binding sites [ion binding]; other site 1305849005384 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1305849005385 substrate binding site [polypeptide binding]; other site 1305849005386 dimer interface [polypeptide binding]; other site 1305849005387 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1305849005388 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1305849005389 nucleotide binding site [chemical binding]; other site 1305849005390 NEF interaction site [polypeptide binding]; other site 1305849005391 SBD interface [polypeptide binding]; other site 1305849005392 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 1305849005393 dimer interface [polypeptide binding]; other site 1305849005394 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1305849005395 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1305849005396 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1305849005397 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1305849005398 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 1305849005399 FeS/SAM binding site; other site 1305849005400 HemN C-terminal domain; Region: HemN_C; pfam06969 1305849005401 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 1305849005402 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1305849005403 conserved cys residue [active] 1305849005404 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 1305849005405 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1305849005406 putative dimer interface [polypeptide binding]; other site 1305849005407 catalytic triad [active] 1305849005408 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 1305849005409 putative deacylase active site [active] 1305849005410 Domain of unknown function (DU1801); Region: DUF1801; cl17490 1305849005411 Helix-turn-helix domain; Region: HTH_17; pfam12728 1305849005412 Sugar transport protein; Region: Sugar_transport; pfam06800 1305849005413 glucose-1-dehydrogenase; Provisional; Region: PRK08936 1305849005414 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 1305849005415 NAD binding site [chemical binding]; other site 1305849005416 homodimer interface [polypeptide binding]; other site 1305849005417 active site 1305849005418 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1305849005419 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1305849005420 active site 1305849005421 Riboflavin kinase; Region: Flavokinase; pfam01687 1305849005422 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 1305849005423 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1305849005424 RNA binding site [nucleotide binding]; other site 1305849005425 active site 1305849005426 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1305849005427 XFP C-terminal domain; Region: XFP_C; pfam09363 1305849005428 putative phosphoketolase; Provisional; Region: PRK05261 1305849005429 XFP N-terminal domain; Region: XFP_N; pfam09364 1305849005430 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1305849005431 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849005432 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849005433 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1305849005434 translation initiation factor IF-2; Validated; Region: infB; PRK05306 1305849005435 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1305849005436 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1305849005437 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1305849005438 G1 box; other site 1305849005439 putative GEF interaction site [polypeptide binding]; other site 1305849005440 GTP/Mg2+ binding site [chemical binding]; other site 1305849005441 Switch I region; other site 1305849005442 G2 box; other site 1305849005443 G3 box; other site 1305849005444 Switch II region; other site 1305849005445 G4 box; other site 1305849005446 G5 box; other site 1305849005447 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 1305849005448 Translation-initiation factor 2; Region: IF-2; pfam11987 1305849005449 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 1305849005450 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1305849005451 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 1305849005452 putative RNA binding cleft [nucleotide binding]; other site 1305849005453 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1305849005454 NusA N-terminal domain; Region: NusA_N; pfam08529 1305849005455 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 1305849005456 RNA binding site [nucleotide binding]; other site 1305849005457 homodimer interface [polypeptide binding]; other site 1305849005458 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 1305849005459 G-X-X-G motif; other site 1305849005460 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 1305849005461 G-X-X-G motif; other site 1305849005462 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1305849005463 Sm and related proteins; Region: Sm_like; cl00259 1305849005464 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1305849005465 putative oligomer interface [polypeptide binding]; other site 1305849005466 putative RNA binding site [nucleotide binding]; other site 1305849005467 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1305849005468 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1305849005469 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 1305849005470 generic binding surface II; other site 1305849005471 generic binding surface I; other site 1305849005472 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1305849005473 active site 1305849005474 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1305849005475 active site 1305849005476 catalytic site [active] 1305849005477 substrate binding site [chemical binding]; other site 1305849005478 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1305849005479 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1305849005480 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 1305849005481 dimer interface [polypeptide binding]; other site 1305849005482 motif 1; other site 1305849005483 active site 1305849005484 motif 2; other site 1305849005485 motif 3; other site 1305849005486 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 1305849005487 anticodon binding site; other site 1305849005488 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 1305849005489 RIP metalloprotease RseP; Region: TIGR00054 1305849005490 active site 1305849005491 putative substrate binding region [chemical binding]; other site 1305849005492 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1305849005493 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 1305849005494 active site 1305849005495 dimer interface [polypeptide binding]; other site 1305849005496 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1305849005497 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1305849005498 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1305849005499 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 1305849005500 hinge region; other site 1305849005501 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 1305849005502 putative nucleotide binding site [chemical binding]; other site 1305849005503 uridine monophosphate binding site [chemical binding]; other site 1305849005504 homohexameric interface [polypeptide binding]; other site 1305849005505 elongation factor Ts; Provisional; Region: tsf; PRK09377 1305849005506 UBA/TS-N domain; Region: UBA; pfam00627 1305849005507 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 1305849005508 rRNA interaction site [nucleotide binding]; other site 1305849005509 S8 interaction site; other site 1305849005510 putative laminin-1 binding site; other site 1305849005511 Arginine repressor [Transcription]; Region: ArgR; COG1438 1305849005512 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1305849005513 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1305849005514 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 1305849005515 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1305849005516 catalytic residue [active] 1305849005517 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1305849005518 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 1305849005519 motif II; other site 1305849005520 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1305849005521 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1305849005522 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1305849005523 active site 1305849005524 HIGH motif; other site 1305849005525 KMSK motif region; other site 1305849005526 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1305849005527 tRNA binding surface [nucleotide binding]; other site 1305849005528 anticodon binding site; other site 1305849005529 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849005530 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849005531 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 1305849005532 putative substrate binding site [chemical binding]; other site 1305849005533 nucleotide binding site [chemical binding]; other site 1305849005534 nucleotide binding site [chemical binding]; other site 1305849005535 homodimer interface [polypeptide binding]; other site 1305849005536 ornithine carbamoyltransferase; Validated; Region: PRK02102 1305849005537 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1305849005538 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1305849005539 arginine deiminase; Provisional; Region: PRK01388 1305849005540 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1305849005541 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1305849005542 ligand binding site [chemical binding]; other site 1305849005543 flexible hinge region; other site 1305849005544 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1305849005545 UGMP family protein; Validated; Region: PRK09604 1305849005546 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1305849005547 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1305849005548 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849005549 Coenzyme A binding pocket [chemical binding]; other site 1305849005550 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1305849005551 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1305849005552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849005553 Coenzyme A binding pocket [chemical binding]; other site 1305849005554 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1305849005555 Glycoprotease family; Region: Peptidase_M22; pfam00814 1305849005556 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849005557 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849005558 DNA binding site [nucleotide binding] 1305849005559 domain linker motif; other site 1305849005560 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 1305849005561 putative dimerization interface [polypeptide binding]; other site 1305849005562 putative ligand binding site [chemical binding]; other site 1305849005563 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1305849005564 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1305849005565 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1305849005566 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1305849005567 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1305849005568 NAD binding site [chemical binding]; other site 1305849005569 homodimer interface [polypeptide binding]; other site 1305849005570 active site 1305849005571 substrate binding site [chemical binding]; other site 1305849005572 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 1305849005573 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1305849005574 Protein of unknown function, DUF488; Region: DUF488; cl01246 1305849005575 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 1305849005576 active site residue [active] 1305849005577 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1305849005578 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1305849005579 nucleotide binding site [chemical binding]; other site 1305849005580 Glucokinase; Region: Glucokinase; cl17310 1305849005581 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 1305849005582 Rhomboid family; Region: Rhomboid; pfam01694 1305849005583 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1305849005584 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 1305849005585 ABC-ATPase subunit interface; other site 1305849005586 dimer interface [polypeptide binding]; other site 1305849005587 putative PBP binding regions; other site 1305849005588 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 1305849005589 ABC-ATPase subunit interface; other site 1305849005590 dimer interface [polypeptide binding]; other site 1305849005591 putative PBP binding regions; other site 1305849005592 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1305849005593 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1305849005594 Walker A/P-loop; other site 1305849005595 ATP binding site [chemical binding]; other site 1305849005596 Q-loop/lid; other site 1305849005597 ABC transporter signature motif; other site 1305849005598 Walker B; other site 1305849005599 D-loop; other site 1305849005600 H-loop/switch region; other site 1305849005601 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1305849005602 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1305849005603 intersubunit interface [polypeptide binding]; other site 1305849005604 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 1305849005605 folate binding site [chemical binding]; other site 1305849005606 NADP+ binding site [chemical binding]; other site 1305849005607 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1305849005608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 1305849005609 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1305849005610 active site 1305849005611 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1305849005612 dimer interface [polypeptide binding]; other site 1305849005613 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1305849005614 Ligand Binding Site [chemical binding]; other site 1305849005615 Molecular Tunnel; other site 1305849005616 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 1305849005617 active site 1305849005618 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1305849005619 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1305849005620 WHG domain; Region: WHG; pfam13305 1305849005621 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 1305849005622 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 1305849005623 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1305849005624 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1305849005625 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1305849005626 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849005627 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849005628 Integrase core domain; Region: rve; pfam00665 1305849005629 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1305849005630 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 1305849005631 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1305849005632 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 1305849005633 putative active site [active] 1305849005634 catalytic site [active] 1305849005635 putative metal binding site [ion binding]; other site 1305849005636 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849005637 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849005638 Integrase core domain; Region: rve; pfam00665 1305849005639 Integrase core domain; Region: rve_3; cl15866 1305849005640 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1305849005641 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1305849005642 Transposase domain (DUF772); Region: DUF772; pfam05598 1305849005643 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1305849005644 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 1305849005645 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1305849005646 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 1305849005647 active site 1305849005648 dimer interface [polypeptide binding]; other site 1305849005649 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 1305849005650 dimer interface [polypeptide binding]; other site 1305849005651 active site 1305849005652 glutamate dehydrogenase; Provisional; Region: PRK09414 1305849005653 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1305849005654 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1305849005655 NAD(P) binding site [chemical binding]; other site 1305849005656 HI0933-like protein; Region: HI0933_like; pfam03486 1305849005657 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849005658 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849005659 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 1305849005660 putative deacylase active site [active] 1305849005661 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1305849005662 active site 1305849005663 catalytic residue [active] 1305849005664 dimer interface [polypeptide binding]; other site 1305849005665 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1305849005666 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1305849005667 putative RNA binding site [nucleotide binding]; other site 1305849005668 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 1305849005669 S-adenosylmethionine binding site [chemical binding]; other site 1305849005670 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1305849005671 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 1305849005672 Sulfatase; Region: Sulfatase; pfam00884 1305849005673 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849005674 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1305849005675 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849005676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849005677 Q-loop/lid; other site 1305849005678 ABC transporter signature motif; other site 1305849005679 Walker B; other site 1305849005680 D-loop; other site 1305849005681 H-loop/switch region; other site 1305849005682 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1305849005683 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 1305849005684 dimerization interface [polypeptide binding]; other site 1305849005685 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 1305849005686 dimer interface [polypeptide binding]; other site 1305849005687 phosphorylation site [posttranslational modification] 1305849005688 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 1305849005689 ATP binding site [chemical binding]; other site 1305849005690 Mg2+ binding site [ion binding]; other site 1305849005691 G-X-G motif; other site 1305849005692 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1305849005693 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 1305849005694 active site 1305849005695 phosphorylation site [posttranslational modification] 1305849005696 intermolecular recognition site; other site 1305849005697 dimerization interface [polypeptide binding]; other site 1305849005698 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 1305849005699 DNA binding site [nucleotide binding] 1305849005700 SdpI/YhfL protein family; Region: SdpI; pfam13630 1305849005701 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1305849005702 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 1305849005703 active site 1305849005704 motif I; other site 1305849005705 motif II; other site 1305849005706 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 1305849005707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849005708 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849005709 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1305849005710 MULE transposase domain; Region: MULE; pfam10551 1305849005711 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1305849005712 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1305849005713 acetolactate synthase; Reviewed; Region: PRK08617 1305849005714 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1305849005715 PYR/PP interface [polypeptide binding]; other site 1305849005716 dimer interface [polypeptide binding]; other site 1305849005717 TPP binding site [chemical binding]; other site 1305849005718 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1305849005719 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1305849005720 TPP-binding site [chemical binding]; other site 1305849005721 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1305849005722 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 1305849005723 dimer interface [polypeptide binding]; other site 1305849005724 conserved gate region; other site 1305849005725 putative PBP binding loops; other site 1305849005726 ABC-ATPase subunit interface; other site 1305849005727 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 1305849005728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1305849005729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1305849005730 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1305849005731 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1305849005732 DNA binding residues [nucleotide binding] 1305849005733 putative dimer interface [polypeptide binding]; other site 1305849005734 benzoate transport; Region: 2A0115; TIGR00895 1305849005735 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 1305849005736 putative substrate translocation pore; other site 1305849005737 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849005738 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 1305849005739 active site 1305849005740 catalytic site [active] 1305849005741 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849005742 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849005743 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1305849005744 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1305849005745 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849005746 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 1305849005747 AP2-like DNA-binding integrase domain; Region: Integrase_AP2; pfam14657 1305849005748 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1305849005749 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 1305849005750 active site 1305849005751 DNA binding site [nucleotide binding] 1305849005752 Int/Topo IB signature motif; other site 1305849005753 Helix-turn-helix domain; Region: HTH_17; pfam12728 1305849005754 Helix-turn-helix domain; Region: HTH_16; pfam12645 1305849005755 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1305849005756 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 1305849005757 DNA binding residues [nucleotide binding] 1305849005758 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1305849005759 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1305849005760 zinc-finger binding domain of transposase IS66; Region: zf-IS66; pfam13005 1305849005761 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1305849005762 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1305849005763 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1305849005764 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1305849005765 putative transposase OrfB; Reviewed; Region: PHA02517 1305849005766 HTH-like domain; Region: HTH_21; pfam13276 1305849005767 Integrase core domain; Region: rve; pfam00665 1305849005768 Integrase core domain; Region: rve_2; pfam13333 1305849005769 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849005770 Transposase; Region: HTH_Tnp_1; pfam01527 1305849005771 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1305849005772 active site 1305849005773 metal binding site [ion binding]; metal-binding site 1305849005774 Glycosyl hydrolase family 32; Region: GH32_Aec43_like; cd08995 1305849005775 active site 1305849005776 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 1305849005777 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 1305849005778 active pocket/dimerization site; other site 1305849005779 active site 1305849005780 phosphorylation site [posttranslational modification] 1305849005781 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 1305849005782 active site 1305849005783 phosphorylation site [posttranslational modification] 1305849005784 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1305849005785 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 1305849005786 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1305849005787 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1305849005788 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 1305849005789 Walker A motif; other site 1305849005790 ATP binding site [chemical binding]; other site 1305849005791 Walker B motif; other site 1305849005792 arginine finger; other site 1305849005793 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 1305849005794 active site 1305849005795 active pocket/dimerization site; other site 1305849005796 phosphorylation site [posttranslational modification] 1305849005797 PRD domain; Region: PRD; pfam00874 1305849005798 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1305849005799 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1305849005800 nucleotide binding site [chemical binding]; other site 1305849005801 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1305849005802 HPr interaction site; other site 1305849005803 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1305849005804 active site 1305849005805 phosphorylation site [posttranslational modification] 1305849005806 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1305849005807 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 1305849005808 active site turn [active] 1305849005809 phosphorylation site [posttranslational modification] 1305849005810 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1305849005811 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 1305849005812 Glycosyl hydrolase family 32; Region: GH32_Aec43_like; cd08995 1305849005813 active site 1305849005814 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849005815 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849005816 DNA binding site [nucleotide binding] 1305849005817 domain linker motif; other site 1305849005818 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 1305849005819 dimerization interface [polypeptide binding]; other site 1305849005820 ligand binding site [chemical binding]; other site 1305849005821 sodium binding site [ion binding]; other site 1305849005822 HTH-like domain; Region: HTH_21; pfam13276 1305849005823 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1305849005824 Integrase core domain; Region: rve; pfam00665 1305849005825 Integrase core domain; Region: rve_3; pfam13683 1305849005826 Transposase; Region: HTH_Tnp_1; cl17663 1305849005827 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849005828 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1305849005829 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1305849005830 putative Zn2+ binding site [ion binding]; other site 1305849005831 putative DNA binding site [nucleotide binding]; other site 1305849005832 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849005833 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849005834 Integrase core domain; Region: rve; pfam00665 1305849005835 Integrase core domain; Region: rve_3; cl15866 1305849005836 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1305849005837 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1305849005838 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1305849005839 Integrase core domain; Region: rve; pfam00665 1305849005840 transposase/IS protein; Provisional; Region: PRK09183 1305849005841 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 1305849005842 Walker A motif; other site 1305849005843 ATP binding site [chemical binding]; other site 1305849005844 Walker B motif; other site 1305849005845 arginine finger; other site 1305849005846 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 1305849005847 Lysozyme-like; Region: Lysozyme_like; pfam13702 1305849005848 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1305849005849 NlpC/P60 family; Region: NLPC_P60; pfam00877 1305849005850 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1305849005851 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1305849005852 Chromatin assembly factor 1 complex p150 subunit, N-terminal; Region: CAF-1_p150; pfam11600 1305849005853 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1305849005854 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1305849005855 MULE transposase domain; Region: MULE; pfam10551 1305849005856 AAA-like domain; Region: AAA_10; pfam12846 1305849005857 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 1305849005858 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1305849005859 putative active site [active] 1305849005860 putative NTP binding site [chemical binding]; other site 1305849005861 putative nucleic acid binding site [nucleotide binding]; other site 1305849005862 AAA-like domain; Region: AAA_10; pfam12846 1305849005863 TcpE family; Region: TcpE; pfam12648 1305849005864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849005865 Walker B; other site 1305849005866 D-loop; other site 1305849005867 H-loop/switch region; other site 1305849005868 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1305849005869 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1305849005870 active site 1305849005871 AAA domain; Region: AAA_23; pfam13476 1305849005872 Antirestriction protein (ArdA); Region: ArdA; pfam07275 1305849005873 Protein of unknown function (DUF3789); Region: DUF3789; pfam12664 1305849005874 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 1305849005875 non-specific DNA binding site [nucleotide binding]; other site 1305849005876 salt bridge; other site 1305849005877 sequence-specific DNA binding site [nucleotide binding]; other site 1305849005878 Replication initiation factor; Region: Rep_trans; pfam02486 1305849005879 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 1305849005880 cofactor binding site; other site 1305849005881 DNA binding site [nucleotide binding] 1305849005882 substrate interaction site [chemical binding]; other site 1305849005883 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1305849005884 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1305849005885 RelB antitoxin; Region: RelB; cl01171 1305849005886 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 1305849005887 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 1305849005888 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849005889 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849005890 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849005891 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1305849005892 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1305849005893 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1305849005894 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1305849005895 RimM N-terminal domain; Region: RimM; pfam01782 1305849005896 PRC-barrel domain; Region: PRC; pfam05239 1305849005897 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1305849005898 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1305849005899 Predicted flavoprotein [General function prediction only]; Region: COG0431 1305849005900 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1305849005901 folate binding site [chemical binding]; other site 1305849005902 NADP+ binding site [chemical binding]; other site 1305849005903 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1305849005904 signal recognition particle protein; Provisional; Region: PRK10867 1305849005905 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1305849005906 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 1305849005907 P loop; other site 1305849005908 GTP binding site [chemical binding]; other site 1305849005909 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1305849005910 putative DNA-binding protein; Validated; Region: PRK00118 1305849005911 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1305849005912 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1305849005913 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 1305849005914 active site 1305849005915 phosphorylation site [posttranslational modification] 1305849005916 intermolecular recognition site; other site 1305849005917 dimerization interface [polypeptide binding]; other site 1305849005918 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 1305849005919 DNA binding site [nucleotide binding] 1305849005920 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1305849005921 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 1305849005922 dimer interface [polypeptide binding]; other site 1305849005923 phosphorylation site [posttranslational modification] 1305849005924 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 1305849005925 ATP binding site [chemical binding]; other site 1305849005926 Mg2+ binding site [ion binding]; other site 1305849005927 G-X-G motif; other site 1305849005928 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 1305849005929 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849005930 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1305849005931 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 1305849005932 SdpI/YhfL protein family; Region: SdpI; pfam13630 1305849005933 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 1305849005934 active site 1305849005935 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 1305849005936 Integrase core domain; Region: rve; pfam00665 1305849005937 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849005938 Helix-turn-helix domain; Region: HTH_28; pfam13518 1305849005939 Helix-turn-helix domain; Region: HTH_28; pfam13518 1305849005940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849005941 Transposase; Region: HTH_Tnp_1; pfam01527 1305849005942 Integrase core domain; Region: rve; pfam00665 1305849005943 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1305849005944 Integrase core domain; Region: rve_2; pfam13333 1305849005945 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1305849005946 MoxR-like ATPases [General function prediction only]; Region: COG0714 1305849005947 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 1305849005948 Walker A motif; other site 1305849005949 ATP binding site [chemical binding]; other site 1305849005950 Walker B motif; other site 1305849005951 arginine finger; other site 1305849005952 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1305849005953 Protein of unknown function DUF58; Region: DUF58; pfam01882 1305849005954 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00166 1305849005955 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1305849005956 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1305849005957 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1305849005958 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 1305849005959 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1305849005960 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849005961 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 1305849005962 motif II; other site 1305849005963 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1305849005964 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1305849005965 metal-binding site [ion binding] 1305849005966 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849005967 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1305849005968 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1305849005969 metal-binding site [ion binding] 1305849005970 Penicillinase repressor; Region: Penicillinase_R; cl17580 1305849005971 topology modulation protein; Reviewed; Region: PRK08118 1305849005972 AAA domain; Region: AAA_17; pfam13207 1305849005973 AAA domain; Region: AAA_17; pfam13207 1305849005974 inner membrane transporter YjeM; Provisional; Region: PRK15238 1305849005975 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1305849005976 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1305849005977 metal-binding site [ion binding] 1305849005978 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1305849005979 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 1305849005980 hypothetical protein; Provisional; Region: PRK11770 1305849005981 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1305849005982 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1305849005983 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 1305849005984 active site 1305849005985 catalytic triad [active] 1305849005986 oxyanion hole [active] 1305849005987 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1305849005988 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 1305849005989 putative dimer interface [polypeptide binding]; other site 1305849005990 putative anticodon binding site; other site 1305849005991 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 1305849005992 homodimer interface [polypeptide binding]; other site 1305849005993 motif 1; other site 1305849005994 motif 2; other site 1305849005995 active site 1305849005996 motif 3; other site 1305849005997 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 1305849005998 homodimer interface [polypeptide binding]; other site 1305849005999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849006000 catalytic residue [active] 1305849006001 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 1305849006002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1305849006003 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 1305849006004 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1305849006005 active site 1305849006006 catalytic site [active] 1305849006007 substrate binding site [chemical binding]; other site 1305849006008 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 1305849006009 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12294 1305849006010 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1305849006011 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1305849006012 DNA-binding site [nucleotide binding]; DNA binding site 1305849006013 RNA-binding motif; other site 1305849006014 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1305849006015 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1305849006016 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 1305849006017 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1305849006018 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1305849006019 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1305849006020 putative active site [active] 1305849006021 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1305849006022 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 1305849006023 putative Cl- selectivity filter; other site 1305849006024 putative pore gating glutamate residue; other site 1305849006025 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 1305849006026 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1305849006027 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1305849006028 Zn2+ binding site [ion binding]; other site 1305849006029 Mg2+ binding site [ion binding]; other site 1305849006030 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1305849006031 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1305849006032 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1305849006033 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 1305849006034 OxaA-like protein precursor; Provisional; Region: PRK02463 1305849006035 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1305849006036 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849006037 Integrase core domain; Region: rve; pfam00665 1305849006038 Integrase core domain; Region: rve_3; cl15866 1305849006039 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 1305849006040 active pocket/dimerization site; other site 1305849006041 phosphorylation site [posttranslational modification] 1305849006042 Phage terminase, small subunit; Region: Terminase_4; cl01525 1305849006043 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1305849006044 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1305849006045 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1305849006046 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849006047 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1305849006048 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 1305849006049 active site 1305849006050 substrate binding site [chemical binding]; other site 1305849006051 metal binding site [ion binding]; metal-binding site 1305849006052 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl19057 1305849006053 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1305849006054 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1305849006055 Substrate binding site; other site 1305849006056 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1305849006057 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1305849006058 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1305849006059 NADP binding site [chemical binding]; other site 1305849006060 active site 1305849006061 putative substrate binding site [chemical binding]; other site 1305849006062 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl19139 1305849006063 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1305849006064 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1305849006065 NADP-binding site; other site 1305849006066 homotetramer interface [polypeptide binding]; other site 1305849006067 substrate binding site [chemical binding]; other site 1305849006068 homodimer interface [polypeptide binding]; other site 1305849006069 active site 1305849006070 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849006071 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849006072 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1305849006073 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1305849006074 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1305849006075 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1305849006076 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1305849006077 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1305849006078 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1305849006079 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1305849006080 VanZ like family; Region: VanZ; cl01971 1305849006081 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1305849006082 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1305849006083 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 1305849006084 Ligand binding site; other site 1305849006085 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 1305849006086 active site 1305849006087 motif I; other site 1305849006088 motif II; other site 1305849006089 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 1305849006090 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 1305849006091 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1305849006092 active site 1305849006093 Substrate binding site; other site 1305849006094 Mg++ binding site; other site 1305849006095 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 1305849006096 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 1305849006097 active site 1305849006098 motif I; other site 1305849006099 motif II; other site 1305849006100 WavE lipopolysaccharide synthesis; Region: WavE; pfam07507 1305849006101 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1305849006102 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1305849006103 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 1305849006104 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 1305849006105 active site 1305849006106 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 1305849006107 trimer interface [polypeptide binding]; other site 1305849006108 active site 1305849006109 substrate binding site [chemical binding]; other site 1305849006110 CoA binding site [chemical binding]; other site 1305849006111 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1305849006112 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1305849006113 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 1305849006114 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 1305849006115 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1305849006116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1305849006117 NAD(P) binding site [chemical binding]; other site 1305849006118 active site 1305849006119 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1305849006120 dimer interface [polypeptide binding]; other site 1305849006121 active site 1305849006122 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 1305849006123 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1305849006124 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 1305849006125 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1305849006126 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1305849006127 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1305849006128 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1305849006129 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1305849006130 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1305849006131 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1305849006132 PHP domain; Region: PHP; pfam02811 1305849006133 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1305849006134 AAA domain; Region: AAA_31; pfam13614 1305849006135 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1305849006136 Chain length determinant protein; Region: Wzz; pfam02706 1305849006137 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1305849006138 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1305849006139 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1305849006140 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 1305849006141 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1305849006142 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 1305849006143 dimer interface [polypeptide binding]; other site 1305849006144 motif 1; other site 1305849006145 active site 1305849006146 motif 2; other site 1305849006147 motif 3; other site 1305849006148 Recombination protein O N terminal; Region: RecO_N; pfam11967 1305849006149 DNA repair protein RecO; Region: reco; TIGR00613 1305849006150 Recombination protein O C terminal; Region: RecO_C; pfam02565 1305849006151 GTPase Era; Reviewed; Region: era; PRK00089 1305849006152 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1305849006153 G1 box; other site 1305849006154 GTP/Mg2+ binding site [chemical binding]; other site 1305849006155 Switch I region; other site 1305849006156 G2 box; other site 1305849006157 Switch II region; other site 1305849006158 G3 box; other site 1305849006159 G4 box; other site 1305849006160 G5 box; other site 1305849006161 KH domain; Region: KH_2; pfam07650 1305849006162 Integral membrane undecaprenol kinase and similar enzymes; Region: UDPK_IM_like; cd14265 1305849006163 trimer interface [polypeptide binding]; other site 1305849006164 putative active site [active] 1305849006165 Zn binding site [ion binding]; other site 1305849006166 metal-binding heat shock protein; Provisional; Region: PRK00016 1305849006167 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1305849006168 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 1305849006169 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 1305849006170 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1305849006171 Zn2+ binding site [ion binding]; other site 1305849006172 Mg2+ binding site [ion binding]; other site 1305849006173 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1305849006174 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 1305849006175 ATP binding site [chemical binding]; other site 1305849006176 putative Mg++ binding site [ion binding]; other site 1305849006177 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1305849006178 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1305849006179 Yqey-like protein; Region: YqeY; pfam09424 1305849006180 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1305849006181 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1305849006182 metal binding site 2 [ion binding]; metal-binding site 1305849006183 putative DNA binding helix; other site 1305849006184 metal binding site 1 [ion binding]; metal-binding site 1305849006185 dimer interface [polypeptide binding]; other site 1305849006186 structural Zn2+ binding site [ion binding]; other site 1305849006187 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 1305849006188 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 1305849006189 dimerization interface [polypeptide binding]; other site 1305849006190 putative DNA binding site [nucleotide binding]; other site 1305849006191 putative Zn2+ binding site [ion binding]; other site 1305849006192 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1305849006193 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 1305849006194 active site 1305849006195 substrate binding site [chemical binding]; other site 1305849006196 metal binding site [ion binding]; metal-binding site 1305849006197 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1305849006198 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849006199 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849006200 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 1305849006201 6-phospho-beta-glucosidase; Reviewed; Region: arb; PRK09593 1305849006202 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1305849006203 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1305849006204 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1305849006205 NAD binding site [chemical binding]; other site 1305849006206 sugar binding site [chemical binding]; other site 1305849006207 divalent metal binding site [ion binding]; other site 1305849006208 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1305849006209 dimer interface [polypeptide binding]; other site 1305849006210 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1305849006211 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1305849006212 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 1305849006213 putative active site [active] 1305849006214 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1305849006215 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 1305849006216 active site turn [active] 1305849006217 phosphorylation site [posttranslational modification] 1305849006218 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1305849006219 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1305849006220 HPr interaction site; other site 1305849006221 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1305849006222 active site 1305849006223 phosphorylation site [posttranslational modification] 1305849006224 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1305849006225 CAT RNA binding domain; Region: CAT_RBD; smart01061 1305849006226 PRD domain; Region: PRD; pfam00874 1305849006227 PRD domain; Region: PRD; pfam00874 1305849006228 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849006229 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849006230 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1305849006231 Walker A/P-loop; other site 1305849006232 ATP binding site [chemical binding]; other site 1305849006233 Q-loop/lid; other site 1305849006234 ABC transporter signature motif; other site 1305849006235 Walker B; other site 1305849006236 D-loop; other site 1305849006237 H-loop/switch region; other site 1305849006238 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849006239 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1305849006240 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849006241 Walker A/P-loop; other site 1305849006242 ATP binding site [chemical binding]; other site 1305849006243 Q-loop/lid; other site 1305849006244 ABC transporter signature motif; other site 1305849006245 Walker B; other site 1305849006246 D-loop; other site 1305849006247 H-loop/switch region; other site 1305849006248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 1305849006249 manganese transport protein MntH; Reviewed; Region: PRK00701 1305849006250 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1305849006251 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 1305849006252 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 1305849006253 AP (apurinic/apyrimidinic) site pocket; other site 1305849006254 DNA interaction; other site 1305849006255 Metal-binding active site; metal-binding site 1305849006256 Transglycosylase; Region: Transgly; pfam00912 1305849006257 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1305849006258 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1305849006259 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1305849006260 nucleophilic elbow; other site 1305849006261 catalytic triad; other site 1305849006262 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 1305849006263 catabolite control protein A; Region: ccpA; TIGR01481 1305849006264 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849006265 DNA binding site [nucleotide binding] 1305849006266 domain linker motif; other site 1305849006267 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 1305849006268 dimerization interface [polypeptide binding]; other site 1305849006269 effector binding site; other site 1305849006270 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1305849006271 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1305849006272 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 1305849006273 active site 1305849006274 YtxH-like protein; Region: YtxH; cl02079 1305849006275 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 1305849006276 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1305849006277 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1305849006278 active site 1305849006279 tetramer interface; other site 1305849006280 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1305849006281 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1305849006282 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1305849006283 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1305849006284 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1305849006285 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1305849006286 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 1305849006287 Hpr binding site; other site 1305849006288 active site 1305849006289 homohexamer subunit interaction site [polypeptide binding]; other site 1305849006290 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849006291 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849006292 Integrase core domain; Region: rve; pfam00665 1305849006293 Membrane protein of unknown function; Region: DUF360; pfam04020 1305849006294 PspC domain; Region: PspC; pfam04024 1305849006295 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; cl19901 1305849006296 Domain of unknown function (DUF4098); Region: DUF4098; cl19992 1305849006297 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1305849006298 YibE/F-like protein; Region: YibE_F; pfam07907 1305849006299 YibE/F-like protein; Region: YibE_F; pfam07907 1305849006300 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1305849006301 PhoU domain; Region: PhoU; pfam01895 1305849006302 PhoU domain; Region: PhoU; pfam01895 1305849006303 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1305849006304 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1305849006305 Walker A/P-loop; other site 1305849006306 ATP binding site [chemical binding]; other site 1305849006307 Q-loop/lid; other site 1305849006308 ABC transporter signature motif; other site 1305849006309 Walker B; other site 1305849006310 D-loop; other site 1305849006311 H-loop/switch region; other site 1305849006312 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 1305849006313 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1305849006314 Walker A/P-loop; other site 1305849006315 ATP binding site [chemical binding]; other site 1305849006316 Q-loop/lid; other site 1305849006317 ABC transporter signature motif; other site 1305849006318 Walker B; other site 1305849006319 D-loop; other site 1305849006320 H-loop/switch region; other site 1305849006321 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1305849006322 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 1305849006323 dimer interface [polypeptide binding]; other site 1305849006324 conserved gate region; other site 1305849006325 putative PBP binding loops; other site 1305849006326 ABC-ATPase subunit interface; other site 1305849006327 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1305849006328 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 1305849006329 dimer interface [polypeptide binding]; other site 1305849006330 conserved gate region; other site 1305849006331 putative PBP binding loops; other site 1305849006332 ABC-ATPase subunit interface; other site 1305849006333 phosphate binding protein; Region: ptsS_2; TIGR02136 1305849006334 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1305849006335 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1305849006336 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1305849006337 putative active site [active] 1305849006338 catalytic site [active] 1305849006339 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1305849006340 putative active site [active] 1305849006341 catalytic site [active] 1305849006342 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1305849006343 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1305849006344 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1305849006345 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849006346 Walker A/P-loop; other site 1305849006347 ATP binding site [chemical binding]; other site 1305849006348 Q-loop/lid; other site 1305849006349 ABC transporter signature motif; other site 1305849006350 Walker B; other site 1305849006351 D-loop; other site 1305849006352 H-loop/switch region; other site 1305849006353 peptide chain release factor 2; Provisional; Region: PRK05589 1305849006354 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1305849006355 RF-1 domain; Region: RF-1; pfam00472 1305849006356 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1305849006357 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 1305849006358 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1305849006359 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 1305849006360 nucleotide binding region [chemical binding]; other site 1305849006361 ATP-binding site [chemical binding]; other site 1305849006362 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 1305849006363 SEC-C motif; Region: SEC-C; pfam02810 1305849006364 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 1305849006365 30S subunit binding site; other site 1305849006366 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1305849006367 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1305849006368 active site 1305849006369 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1305849006370 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 1305849006371 ATP binding site [chemical binding]; other site 1305849006372 putative Mg++ binding site [ion binding]; other site 1305849006373 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 1305849006374 nucleotide binding region [chemical binding]; other site 1305849006375 ATP-binding site [chemical binding]; other site 1305849006376 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 1305849006377 active site 1305849006378 P-loop; other site 1305849006379 phosphorylation site [posttranslational modification] 1305849006380 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 1305849006381 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 1305849006382 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1305849006383 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1305849006384 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1305849006385 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849006386 DNA-binding site [nucleotide binding]; DNA binding site 1305849006387 UTRA domain; Region: UTRA; pfam07702 1305849006388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849006389 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849006390 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1305849006391 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1305849006392 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1305849006393 nucleotide binding site [chemical binding]; other site 1305849006394 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849006395 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1305849006396 Coenzyme A binding pocket [chemical binding]; other site 1305849006397 Haemolytic domain; Region: Haemolytic; pfam01809 1305849006398 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 1305849006399 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 1305849006400 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 1305849006401 hinge; other site 1305849006402 active site 1305849006403 conserved hypothetical integral membrane protein; Region: int_mem_ywzB; TIGR02327 1305849006404 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1305849006405 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1305849006406 gamma subunit interface [polypeptide binding]; other site 1305849006407 epsilon subunit interface [polypeptide binding]; other site 1305849006408 LBP interface [polypeptide binding]; other site 1305849006409 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1305849006410 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1305849006411 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 1305849006412 alpha subunit interaction interface [polypeptide binding]; other site 1305849006413 Walker A motif; other site 1305849006414 ATP binding site [chemical binding]; other site 1305849006415 Walker B motif; other site 1305849006416 inhibitor binding site; inhibition site 1305849006417 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1305849006418 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1305849006419 core domain interface [polypeptide binding]; other site 1305849006420 delta subunit interface [polypeptide binding]; other site 1305849006421 epsilon subunit interface [polypeptide binding]; other site 1305849006422 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1305849006423 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1305849006424 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 1305849006425 beta subunit interaction interface [polypeptide binding]; other site 1305849006426 Walker A motif; other site 1305849006427 ATP binding site [chemical binding]; other site 1305849006428 Walker B motif; other site 1305849006429 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1305849006430 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1305849006431 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 1305849006432 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1305849006433 ATP synthase, F0 subunit c; Region: ATP_synt_c; TIGR01260 1305849006434 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1305849006435 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 1305849006436 SmpB-tmRNA interface; other site 1305849006437 ribonuclease R; Region: RNase_R; TIGR02063 1305849006438 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1305849006439 RNB domain; Region: RNB; pfam00773 1305849006440 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 1305849006441 RNA binding site [nucleotide binding]; other site 1305849006442 Esterase/lipase [General function prediction only]; Region: COG1647 1305849006443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849006444 Q-loop/lid; other site 1305849006445 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 1305849006446 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1305849006447 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849006448 Coenzyme A binding pocket [chemical binding]; other site 1305849006449 Putative lysophospholipase; Region: Hydrolase_4; cl19140 1305849006450 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1305849006451 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 1305849006452 NH_3: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_3; cd02653 1305849006453 active site 1305849006454 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1305849006455 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 1305849006456 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 1305849006457 metal binding site [ion binding]; metal-binding site 1305849006458 dimer interface [polypeptide binding]; other site 1305849006459 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849006460 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849006461 enolase; Provisional; Region: eno; PRK00077 1305849006462 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 1305849006463 dimer interface [polypeptide binding]; other site 1305849006464 metal binding site [ion binding]; metal-binding site 1305849006465 substrate binding pocket [chemical binding]; other site 1305849006466 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 1305849006467 triosephosphate isomerase; Provisional; Region: PRK14565 1305849006468 substrate binding site [chemical binding]; other site 1305849006469 dimer interface [polypeptide binding]; other site 1305849006470 catalytic triad [active] 1305849006471 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1305849006472 substrate binding site [chemical binding]; other site 1305849006473 hinge regions; other site 1305849006474 ADP binding site [chemical binding]; other site 1305849006475 catalytic site [active] 1305849006476 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1305849006477 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1305849006478 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1305849006479 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1305849006480 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1305849006481 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1305849006482 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1305849006483 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1305849006484 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1305849006485 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1305849006486 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1305849006487 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1305849006488 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1305849006489 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1305849006490 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 1305849006491 DNA binding residues [nucleotide binding] 1305849006492 DNA-directed RNA polymerase subunit delta; Reviewed; Region: PRK02363 1305849006493 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1305849006494 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1305849006495 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1305849006496 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1305849006497 Zn2+ binding site [ion binding]; other site 1305849006498 Mg2+ binding site [ion binding]; other site 1305849006499 sugar phosphate phosphatase; Provisional; Region: PRK10513 1305849006500 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 1305849006501 active site 1305849006502 motif I; other site 1305849006503 motif II; other site 1305849006504 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 1305849006505 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 1305849006506 nudix motif; other site 1305849006507 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1305849006508 dimer interface [polypeptide binding]; other site 1305849006509 active site 1305849006510 metal binding site [ion binding]; metal-binding site 1305849006511 glutathione binding site [chemical binding]; other site 1305849006512 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1305849006513 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 1305849006514 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1305849006515 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; cl19124 1305849006516 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 1305849006517 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849006518 DNA-binding site [nucleotide binding]; DNA binding site 1305849006519 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 1305849006520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849006521 homodimer interface [polypeptide binding]; other site 1305849006522 catalytic residue [active] 1305849006523 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1305849006524 Cation transport protein; Region: TrkH; pfam02386 1305849006525 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 1305849006526 V-type ATP synthase subunit B; Provisional; Region: PRK04196 1305849006527 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1305849006528 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 1305849006529 Walker A motif homologous position; other site 1305849006530 Walker B motif; other site 1305849006531 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1305849006532 V-type ATP synthase subunit A; Provisional; Region: PRK04192 1305849006533 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1305849006534 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 1305849006535 Walker A motif/ATP binding site; other site 1305849006536 Walker B motif; other site 1305849006537 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1305849006538 V-type ATP synthase subunit F; Provisional; Region: PRK01395 1305849006539 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 1305849006540 ATP synthase (C/AC39) subunit; Region: vATP-synt_AC39; cl00660 1305849006541 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; cl19511 1305849006542 V-type ATP synthase subunit K; Validated; Region: PRK06558 1305849006543 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 1305849006544 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 1305849006545 V-type ATP synthase subunit I; Validated; Region: PRK05771 1305849006546 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1305849006547 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 1305849006548 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1305849006549 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1305849006550 catalytic triad [active] 1305849006551 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; cl19619 1305849006552 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1305849006553 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1305849006554 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849006555 Walker A/P-loop; other site 1305849006556 ATP binding site [chemical binding]; other site 1305849006557 Q-loop/lid; other site 1305849006558 ABC transporter signature motif; other site 1305849006559 Walker B; other site 1305849006560 D-loop; other site 1305849006561 H-loop/switch region; other site 1305849006562 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1305849006563 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1305849006564 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1305849006565 GIY-YIG motif/motif A; other site 1305849006566 active site 1305849006567 catalytic site [active] 1305849006568 putative DNA binding site [nucleotide binding]; other site 1305849006569 metal binding site [ion binding]; metal-binding site 1305849006570 UvrB/uvrC motif; Region: UVR; pfam02151 1305849006571 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1305849006572 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 1305849006573 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 1305849006574 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1305849006575 catalytic residues [active] 1305849006576 Smr domain; Region: Smr; pfam01713 1305849006577 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1305849006578 MutS domain III; Region: MutS_III; pfam05192 1305849006579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849006580 Walker A/P-loop; other site 1305849006581 ATP binding site [chemical binding]; other site 1305849006582 Q-loop/lid; other site 1305849006583 ABC transporter signature motif; other site 1305849006584 Walker B; other site 1305849006585 D-loop; other site 1305849006586 H-loop/switch region; other site 1305849006587 Colicin V production protein; Region: Colicin_V; cl00567 1305849006588 Cell division protein ZapA; Region: ZapA; cl01146 1305849006589 ribonuclease HIII; Provisional; Region: PRK00996 1305849006590 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1305849006591 Bacterial type 2 ribonuclease, HII and HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1305849006592 RNA/DNA hybrid binding site [nucleotide binding]; other site 1305849006593 active site 1305849006594 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1305849006595 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1305849006596 active site 1305849006597 metal binding site [ion binding]; metal-binding site 1305849006598 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1305849006599 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1305849006600 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1305849006601 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1305849006602 Walker A/P-loop; other site 1305849006603 ATP binding site [chemical binding]; other site 1305849006604 Q-loop/lid; other site 1305849006605 ABC transporter signature motif; other site 1305849006606 Walker B; other site 1305849006607 D-loop; other site 1305849006608 H-loop/switch region; other site 1305849006609 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1305849006610 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1305849006611 FtsX-like permease family; Region: FtsX; pfam02687 1305849006612 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1305849006613 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849006614 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849006615 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 1305849006616 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849006617 electron transport complex protein RnfC; Provisional; Region: PRK05035 1305849006618 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1305849006619 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1305849006620 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1305849006621 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849006622 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849006623 Integrase core domain; Region: rve; pfam00665 1305849006624 Integrase core domain; Region: rve_3; cl15866 1305849006625 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 1305849006626 teramer interface [polypeptide binding]; other site 1305849006627 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1305849006628 active site 1305849006629 FMN binding site [chemical binding]; other site 1305849006630 catalytic residues [active] 1305849006631 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1305849006632 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1305849006633 malate dehydrogenase; Provisional; Region: PRK13529 1305849006634 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1305849006635 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1305849006636 NAD(P) binding pocket [chemical binding]; other site 1305849006637 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 1305849006638 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1305849006639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849006640 Coenzyme A binding pocket [chemical binding]; other site 1305849006641 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1305849006642 hypothetical protein; Provisional; Region: PRK13678 1305849006643 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1305849006644 hypothetical protein; Provisional; Region: PRK05473 1305849006645 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 1305849006646 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1305849006647 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1305849006648 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1305849006649 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1305849006650 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1305849006651 Walker A/P-loop; other site 1305849006652 ATP binding site [chemical binding]; other site 1305849006653 Q-loop/lid; other site 1305849006654 ABC transporter signature motif; other site 1305849006655 Walker B; other site 1305849006656 D-loop; other site 1305849006657 H-loop/switch region; other site 1305849006658 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1305849006659 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 1305849006660 active site 1305849006661 phosphorylation site [posttranslational modification] 1305849006662 intermolecular recognition site; other site 1305849006663 dimerization interface [polypeptide binding]; other site 1305849006664 LytTr DNA-binding domain; Region: LytTR; cl04498 1305849006665 Predicted membrane protein [Function unknown]; Region: COG3689 1305849006666 Predicted permeases [General function prediction only]; Region: COG0701 1305849006667 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 1305849006668 catalytic residues [active] 1305849006669 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1305849006670 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1305849006671 CoA binding domain; Region: CoA_binding; pfam02629 1305849006672 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1305849006673 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849006674 ABC transporter; Region: ABC_tran_2; pfam12848 1305849006675 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849006676 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 1305849006677 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 1305849006678 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 1305849006679 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1305849006680 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 1305849006681 dimer interface [polypeptide binding]; other site 1305849006682 conserved gate region; other site 1305849006683 putative PBP binding loops; other site 1305849006684 ABC-ATPase subunit interface; other site 1305849006685 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 1305849006686 dimer interface [polypeptide binding]; other site 1305849006687 conserved gate region; other site 1305849006688 putative PBP binding loops; other site 1305849006689 ABC-ATPase subunit interface; other site 1305849006690 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1305849006691 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1305849006692 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1305849006693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849006694 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1305849006695 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1305849006696 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849006697 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1305849006698 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 1305849006699 active site residue [active] 1305849006700 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849006701 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 1305849006702 Integrase core domain; Region: rve; pfam00665 1305849006703 Integrase core domain; Region: rve_3; cl15866 1305849006704 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1305849006705 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1305849006706 HflX GTPase family; Region: HflX; cd01878 1305849006707 G1 box; other site 1305849006708 GTP/Mg2+ binding site [chemical binding]; other site 1305849006709 Switch I region; other site 1305849006710 G2 box; other site 1305849006711 G3 box; other site 1305849006712 Switch II region; other site 1305849006713 G4 box; other site 1305849006714 G5 box; other site 1305849006715 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1305849006716 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1305849006717 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 1305849006718 active site 1305849006719 catalytic site [active] 1305849006720 metal binding site [ion binding]; metal-binding site 1305849006721 dimer interface [polypeptide binding]; other site 1305849006722 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1305849006723 oligomer interface [polypeptide binding]; other site 1305849006724 active site residues [active] 1305849006725 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1305849006726 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1305849006727 trimer interface [polypeptide binding]; other site 1305849006728 putative metal binding site [ion binding]; other site 1305849006729 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849006730 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849006731 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1305849006732 Walker A/P-loop; other site 1305849006733 ATP binding site [chemical binding]; other site 1305849006734 Q-loop/lid; other site 1305849006735 ABC transporter signature motif; other site 1305849006736 Walker B; other site 1305849006737 D-loop; other site 1305849006738 H-loop/switch region; other site 1305849006739 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849006740 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849006741 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849006742 Walker A/P-loop; other site 1305849006743 ATP binding site [chemical binding]; other site 1305849006744 Q-loop/lid; other site 1305849006745 ABC transporter signature motif; other site 1305849006746 Walker B; other site 1305849006747 D-loop; other site 1305849006748 H-loop/switch region; other site 1305849006749 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 1305849006750 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1305849006751 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1305849006752 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1305849006753 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1305849006754 DNA-binding site [nucleotide binding]; DNA binding site 1305849006755 RNA-binding motif; other site 1305849006756 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1305849006757 active site 1305849006758 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 1305849006759 amidase catalytic site [active] 1305849006760 Zn binding residues [ion binding]; other site 1305849006761 substrate binding site [chemical binding]; other site 1305849006762 Holin family; Region: Phage_holin_4; pfam05105 1305849006763 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; pfam09693 1305849006764 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 1305849006765 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 1305849006766 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 1305849006767 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1305849006768 catalytic residue [active] 1305849006769 Phage tail protein; Region: Sipho_tail; cl17486 1305849006770 Phage-related protein [Function unknown]; Region: COG5412 1305849006771 tape measure domain; Region: tape_meas_nterm; TIGR02675 1305849006772 Phage-related protein [Function unknown]; Region: COG5412 1305849006773 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 1305849006774 Bacteriophage HK97-gp10, putative tail-component; Region: HK97-gp10_like; pfam04883 1305849006775 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 1305849006776 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1305849006777 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; cl19531 1305849006778 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1305849006779 Uncharacterized conserved protein [Function unknown]; Region: COG5484 1305849006780 Phage terminase small subunit; Region: Phage_terminase; pfam10668 1305849006781 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 1305849006782 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 1305849006783 YopX protein; Region: YopX; pfam09643 1305849006784 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1305849006785 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 1305849006786 Walker A motif; other site 1305849006787 ATP binding site [chemical binding]; other site 1305849006788 Walker B motif; other site 1305849006789 RecT family; Region: RecT; cl04285 1305849006790 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 1305849006791 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 1305849006792 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 1305849006793 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1305849006794 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 1305849006795 non-specific DNA binding site [nucleotide binding]; other site 1305849006796 salt bridge; other site 1305849006797 sequence-specific DNA binding site [nucleotide binding]; other site 1305849006798 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 1305849006799 Catalytic site [active] 1305849006800 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 1305849006801 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 1305849006802 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1305849006803 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 1305849006804 catalytic residues [active] 1305849006805 catalytic nucleophile [active] 1305849006806 Recombinase; Region: Recombinase; pfam07508 1305849006807 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1305849006808 hypothetical protein; Reviewed; Region: PRK00024 1305849006809 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 1305849006810 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1305849006811 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 1305849006812 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 1305849006813 motif II; other site 1305849006814 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1305849006815 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1305849006816 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1305849006817 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1305849006818 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1305849006819 active site 1305849006820 HIGH motif; other site 1305849006821 KMSKS motif; other site 1305849006822 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1305849006823 tRNA binding surface [nucleotide binding]; other site 1305849006824 anticodon binding site; other site 1305849006825 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1305849006826 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1305849006827 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1305849006828 CoA binding domain; Region: CoA_binding; pfam02629 1305849006829 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1305849006830 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1305849006831 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 1305849006832 Ligand Binding Site [chemical binding]; other site 1305849006833 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1305849006834 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1305849006835 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1305849006836 catalytic residue [active] 1305849006837 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 1305849006838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4696 1305849006839 metal binding site [ion binding]; metal-binding site 1305849006840 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 1305849006841 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1305849006842 active site 1305849006843 motif I; other site 1305849006844 motif II; other site 1305849006845 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 1305849006846 Protein of unknown function DUF72; Region: DUF72; pfam01904 1305849006847 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1305849006848 active site 1305849006849 homotetramer interface [polypeptide binding]; other site 1305849006850 homodimer interface [polypeptide binding]; other site 1305849006851 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1305849006852 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 1305849006853 active site 1305849006854 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1305849006855 active site 2 [active] 1305849006856 Phosphotransferase enzyme family; Region: APH; pfam01636 1305849006857 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 1305849006858 active site 1305849006859 substrate binding site [chemical binding]; other site 1305849006860 ATP binding site [chemical binding]; other site 1305849006861 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 1305849006862 trimer interface [polypeptide binding]; other site 1305849006863 active site 1305849006864 G bulge; other site 1305849006865 Putative lysophospholipase; Region: Hydrolase_4; cl19140 1305849006866 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1305849006867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 1305849006868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849006869 Transposase; Region: HTH_Tnp_1; pfam01527 1305849006870 HTH-like domain; Region: HTH_21; pfam13276 1305849006871 Integrase core domain; Region: rve; pfam00665 1305849006872 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849006873 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1305849006874 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849006875 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 1305849006876 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1305849006877 RNA binding site [nucleotide binding]; other site 1305849006878 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 1305849006879 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 1305849006880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1305849006881 homodimer interface [polypeptide binding]; other site 1305849006882 catalytic residue [active] 1305849006883 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 1305849006884 active site 1305849006885 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1305849006886 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849006887 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1305849006888 tetramer interfaces [polypeptide binding]; other site 1305849006889 binuclear metal-binding site [ion binding]; other site 1305849006890 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 1305849006891 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1305849006892 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 1305849006893 active site 1305849006894 motif I; other site 1305849006895 motif II; other site 1305849006896 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 1305849006897 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1305849006898 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1305849006899 active site 1305849006900 metal binding site [ion binding]; metal-binding site 1305849006901 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1305849006902 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 1305849006903 nucleoside/Zn binding site; other site 1305849006904 dimer interface [polypeptide binding]; other site 1305849006905 catalytic motif [active] 1305849006906 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1305849006907 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1305849006908 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 1305849006909 S-adenosylmethionine binding site [chemical binding]; other site 1305849006910 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1305849006911 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1305849006912 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849006913 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849006914 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849006915 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 1305849006916 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1305849006917 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1305849006918 PhnA protein; Region: PhnA; pfam03831 1305849006919 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1305849006920 DHH family; Region: DHH; pfam01368 1305849006921 DHHA1 domain; Region: DHHA1; pfam02272 1305849006922 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1305849006923 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849006924 DNA-binding site [nucleotide binding]; DNA binding site 1305849006925 DRTGG domain; Region: DRTGG; pfam07085 1305849006926 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 1305849006927 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 1305849006928 active site 2 [active] 1305849006929 active site 1 [active] 1305849006930 metal-dependent hydrolase; Provisional; Region: PRK00685 1305849006931 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 1305849006932 putative deacylase active site [active] 1305849006933 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1305849006934 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1305849006935 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 1305849006936 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1305849006937 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1305849006938 FtsX-like permease family; Region: FtsX; pfam02687 1305849006939 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1305849006940 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1305849006941 Walker A/P-loop; other site 1305849006942 ATP binding site [chemical binding]; other site 1305849006943 Q-loop/lid; other site 1305849006944 ABC transporter signature motif; other site 1305849006945 Walker B; other site 1305849006946 D-loop; other site 1305849006947 H-loop/switch region; other site 1305849006948 CsbD-like; Region: CsbD; cl17424 1305849006949 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with the...; Region: Isoaspartyl-dipeptidase; cd01308 1305849006950 isoaspartyl dipeptidase; Provisional; Region: PRK10657 1305849006951 dimer interface [polypeptide binding]; other site 1305849006952 active site 1305849006953 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1305849006954 hypothetical protein; Provisional; Region: PRK11588 1305849006955 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1305849006956 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 1305849006957 putative active site [active] 1305849006958 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849006959 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849006960 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849006961 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849006962 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 1305849006963 UbiA family of prenyltransferases (PTases); Region: PT_UbiA; cl00337 1305849006964 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1305849006965 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1305849006966 active site 1305849006967 tetramer interface; other site 1305849006968 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1305849006969 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1305849006970 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1305849006971 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1305849006972 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1305849006973 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1305849006974 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1305849006975 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 1305849006976 putative active site [active] 1305849006977 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1305849006978 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1305849006979 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 1305849006980 dimer interface [polypeptide binding]; other site 1305849006981 active site 1305849006982 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 1305849006983 dimer interface [polypeptide binding]; other site 1305849006984 active site 1305849006985 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1305849006986 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1305849006987 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 1305849006988 active site 1305849006989 phosphorylation site [posttranslational modification] 1305849006990 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 1305849006991 active pocket/dimerization site; other site 1305849006992 active site 1305849006993 phosphorylation site [posttranslational modification] 1305849006994 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 1305849006995 active pocket/dimerization site; other site 1305849006996 active site 1305849006997 phosphorylation site [posttranslational modification] 1305849006998 PRD domain; Region: PRD; pfam00874 1305849006999 Transcriptional antiterminator [Transcription]; Region: COG3933 1305849007000 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 1305849007001 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1305849007002 Walker A motif; other site 1305849007003 ATP binding site [chemical binding]; other site 1305849007004 Walker B motif; other site 1305849007005 arginine finger; other site 1305849007006 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849007007 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849007008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849007009 Walker A/P-loop; other site 1305849007010 ATP binding site [chemical binding]; other site 1305849007011 Q-loop/lid; other site 1305849007012 ABC transporter signature motif; other site 1305849007013 Walker B; other site 1305849007014 D-loop; other site 1305849007015 H-loop/switch region; other site 1305849007016 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849007017 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849007018 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1305849007019 Walker A/P-loop; other site 1305849007020 ATP binding site [chemical binding]; other site 1305849007021 Q-loop/lid; other site 1305849007022 ABC transporter signature motif; other site 1305849007023 Walker B; other site 1305849007024 D-loop; other site 1305849007025 H-loop/switch region; other site 1305849007026 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1305849007027 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1305849007028 active site 1305849007029 dimer interfaces [polypeptide binding]; other site 1305849007030 catalytic residues [active] 1305849007031 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1305849007032 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1305849007033 Walker A/P-loop; other site 1305849007034 ATP binding site [chemical binding]; other site 1305849007035 Q-loop/lid; other site 1305849007036 ABC transporter signature motif; other site 1305849007037 Walker B; other site 1305849007038 D-loop; other site 1305849007039 H-loop/switch region; other site 1305849007040 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 1305849007041 S-adenosylmethionine binding site [chemical binding]; other site 1305849007042 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1305849007043 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1305849007044 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 1305849007045 putative active site [active] 1305849007046 putative metal binding site [ion binding]; other site 1305849007047 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1305849007048 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1305849007049 active site 1305849007050 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1305849007051 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 1305849007052 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849007053 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849007054 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1305849007055 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1305849007056 active site 1305849007057 HIGH motif; other site 1305849007058 KMSKS motif; other site 1305849007059 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1305849007060 tRNA binding surface [nucleotide binding]; other site 1305849007061 anticodon binding site; other site 1305849007062 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 1305849007063 dimer interface [polypeptide binding]; other site 1305849007064 putative tRNA-binding site [nucleotide binding]; other site 1305849007065 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1305849007066 nudix motif; other site 1305849007067 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1305849007068 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1305849007069 Probable transposase; Region: OrfB_IS605; pfam01385 1305849007070 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1305849007071 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1305849007072 Walker A/P-loop; other site 1305849007073 ATP binding site [chemical binding]; other site 1305849007074 Q-loop/lid; other site 1305849007075 ABC transporter signature motif; other site 1305849007076 Walker B; other site 1305849007077 D-loop; other site 1305849007078 H-loop/switch region; other site 1305849007079 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1305849007080 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1305849007081 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1305849007082 Walker A/P-loop; other site 1305849007083 ATP binding site [chemical binding]; other site 1305849007084 Q-loop/lid; other site 1305849007085 ABC transporter signature motif; other site 1305849007086 Walker B; other site 1305849007087 D-loop; other site 1305849007088 H-loop/switch region; other site 1305849007089 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1305849007090 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1305849007091 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1305849007092 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 1305849007093 dimer interface [polypeptide binding]; other site 1305849007094 conserved gate region; other site 1305849007095 putative PBP binding loops; other site 1305849007096 ABC-ATPase subunit interface; other site 1305849007097 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1305849007098 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 1305849007099 dimer interface [polypeptide binding]; other site 1305849007100 conserved gate region; other site 1305849007101 putative PBP binding loops; other site 1305849007102 ABC-ATPase subunit interface; other site 1305849007103 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 1305849007104 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1305849007105 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1305849007106 peptide binding site [polypeptide binding]; other site 1305849007107 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849007108 Coenzyme A binding pocket [chemical binding]; other site 1305849007109 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 1305849007110 putative active site [active] 1305849007111 metal binding site [ion binding]; metal-binding site 1305849007112 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1305849007113 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 1305849007114 FeS/SAM binding site; other site 1305849007115 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1305849007116 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1305849007117 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1305849007118 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1305849007119 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1305849007120 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 1305849007121 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1305849007122 substrate binding pocket [chemical binding]; other site 1305849007123 membrane-bound complex binding site; other site 1305849007124 hinge residues; other site 1305849007125 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1305849007126 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849007127 Walker A/P-loop; other site 1305849007128 ATP binding site [chemical binding]; other site 1305849007129 Q-loop/lid; other site 1305849007130 ABC transporter signature motif; other site 1305849007131 Walker B; other site 1305849007132 D-loop; other site 1305849007133 H-loop/switch region; other site 1305849007134 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 1305849007135 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 1305849007136 dimer interface [polypeptide binding]; other site 1305849007137 conserved gate region; other site 1305849007138 putative PBP binding loops; other site 1305849007139 ABC-ATPase subunit interface; other site 1305849007140 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 1305849007141 putative deacylase active site [active] 1305849007142 Collagen binding domain; Region: Collagen_bind; pfam05737 1305849007143 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849007144 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1305849007145 domain interaction interfaces [polypeptide binding]; other site 1305849007146 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1305849007147 domain interaction interfaces [polypeptide binding]; other site 1305849007148 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1305849007149 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1305849007150 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1305849007151 CAAX protease self-immunity; Region: Abi; pfam02517 1305849007152 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1305849007153 active site 1305849007154 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 1305849007155 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1305849007156 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 1305849007157 dimer interface [polypeptide binding]; other site 1305849007158 active site 1305849007159 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1305849007160 folate binding site [chemical binding]; other site 1305849007161 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1305849007162 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1305849007163 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1305849007164 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 1305849007165 S-adenosylmethionine binding site [chemical binding]; other site 1305849007166 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1305849007167 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1305849007168 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1305849007169 RF-1 domain; Region: RF-1; pfam00472 1305849007170 thymidine kinase; Provisional; Region: PRK04296 1305849007171 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 1305849007172 ATP binding site [chemical binding]; other site 1305849007173 Walker A motif; other site 1305849007174 Walker B motif; other site 1305849007175 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1305849007176 Coenzyme A binding pocket [chemical binding]; other site 1305849007177 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1305849007178 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 1305849007179 S-adenosylmethionine binding site [chemical binding]; other site 1305849007180 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1305849007181 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 1305849007182 Catalytic site [active] 1305849007183 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 1305849007184 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1305849007185 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1305849007186 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1305849007187 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1305849007188 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1305849007189 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1305849007190 catalytic triad [active] 1305849007191 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849007192 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849007193 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1305849007194 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1305849007195 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1305849007196 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 1305849007197 active site 1305849007198 phosphorylation site [posttranslational modification] 1305849007199 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 1305849007200 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1305849007201 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1305849007202 active site 1305849007203 P-loop; other site 1305849007204 phosphorylation site [posttranslational modification] 1305849007205 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1305849007206 active site 1305849007207 P-loop; other site 1305849007208 phosphorylation site [posttranslational modification] 1305849007209 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1305849007210 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1305849007211 Walker A/P-loop; other site 1305849007212 ATP binding site [chemical binding]; other site 1305849007213 Q-loop/lid; other site 1305849007214 ABC transporter signature motif; other site 1305849007215 Walker B; other site 1305849007216 D-loop; other site 1305849007217 H-loop/switch region; other site 1305849007218 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 1305849007219 active site 1305849007220 phosphorylation site [posttranslational modification] 1305849007221 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1305849007222 HTH domain; Region: HTH_11; cl17392 1305849007223 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849007224 PRD domain; Region: PRD; pfam00874 1305849007225 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 1305849007226 P-loop; other site 1305849007227 active site 1305849007228 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 1305849007229 active site 1305849007230 phosphorylation site [posttranslational modification] 1305849007231 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 1305849007232 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1305849007233 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1305849007234 active site 1305849007235 P-loop; other site 1305849007236 phosphorylation site [posttranslational modification] 1305849007237 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 1305849007238 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1305849007239 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl19057 1305849007240 Beta-lactamase; Region: Beta-lactamase; pfam00144 1305849007241 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1305849007242 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 1305849007243 active site 1305849007244 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 1305849007245 active site 1305849007246 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849007247 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849007248 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1305849007249 Walker A/P-loop; other site 1305849007250 ATP binding site [chemical binding]; other site 1305849007251 Q-loop/lid; other site 1305849007252 ABC transporter signature motif; other site 1305849007253 Walker B; other site 1305849007254 D-loop; other site 1305849007255 H-loop/switch region; other site 1305849007256 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849007257 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849007258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849007259 Walker A/P-loop; other site 1305849007260 ATP binding site [chemical binding]; other site 1305849007261 Q-loop/lid; other site 1305849007262 ABC transporter signature motif; other site 1305849007263 Walker B; other site 1305849007264 D-loop; other site 1305849007265 H-loop/switch region; other site 1305849007266 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1305849007267 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1305849007268 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 1305849007269 active site residue [active] 1305849007270 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1305849007271 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1305849007272 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1305849007273 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1305849007274 Sulfatase; Region: Sulfatase; pfam00884 1305849007275 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1305849007276 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1305849007277 NAD binding site [chemical binding]; other site 1305849007278 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1305849007279 L-arabinose isomerase; Provisional; Region: PRK02929 1305849007280 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1305849007281 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1305849007282 trimer interface [polypeptide binding]; other site 1305849007283 substrate binding site [chemical binding]; other site 1305849007284 Mn binding site [ion binding]; other site 1305849007285 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1305849007286 intersubunit interface [polypeptide binding]; other site 1305849007287 active site 1305849007288 Zn2+ binding site [ion binding]; other site 1305849007289 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 1305849007290 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1305849007291 putative N- and C-terminal domain interface [polypeptide binding]; other site 1305849007292 putative active site [active] 1305849007293 MgATP binding site [chemical binding]; other site 1305849007294 catalytic site [active] 1305849007295 metal binding site [ion binding]; metal-binding site 1305849007296 putative carbohydrate binding site [chemical binding]; other site 1305849007297 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1305849007298 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 1305849007299 putative substrate translocation pore; other site 1305849007300 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1305849007301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849007302 DNA-binding site [nucleotide binding]; DNA binding site 1305849007303 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1305849007304 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 1305849007305 putative dimerization interface [polypeptide binding]; other site 1305849007306 putative ligand binding site [chemical binding]; other site 1305849007307 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 1305849007308 active site 1305849007309 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1305849007310 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; smart00813 1305849007311 Protein of unknown function, DUF624; Region: DUF624; pfam04854 1305849007312 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1305849007313 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 1305849007314 dimer interface [polypeptide binding]; other site 1305849007315 conserved gate region; other site 1305849007316 putative PBP binding loops; other site 1305849007317 ABC-ATPase subunit interface; other site 1305849007318 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 1305849007319 dimer interface [polypeptide binding]; other site 1305849007320 conserved gate region; other site 1305849007321 putative PBP binding loops; other site 1305849007322 ABC-ATPase subunit interface; other site 1305849007323 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1305849007324 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1305849007325 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1305849007326 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 1305849007327 Predicted transcriptional regulator [Transcription]; Region: COG4189 1305849007328 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 1305849007329 putative DNA binding site [nucleotide binding]; other site 1305849007330 dimerization interface [polypeptide binding]; other site 1305849007331 putative Zn2+ binding site [ion binding]; other site 1305849007332 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 1305849007333 homodimer interface [polypeptide binding]; other site 1305849007334 NAD binding pocket [chemical binding]; other site 1305849007335 ATP binding pocket [chemical binding]; other site 1305849007336 Mg binding site [ion binding]; other site 1305849007337 active-site loop [active] 1305849007338 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1305849007339 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 1305849007340 active site 1305849007341 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1305849007342 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1305849007343 DNA binding residues [nucleotide binding] 1305849007344 dimer interface [polypeptide binding]; other site 1305849007345 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1305849007346 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849007347 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849007348 DNA binding site [nucleotide binding] 1305849007349 domain linker motif; other site 1305849007350 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 1305849007351 putative ligand binding site [chemical binding]; other site 1305849007352 putative dimerization interface [polypeptide binding]; other site 1305849007353 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 1305849007354 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 1305849007355 ring oligomerisation interface [polypeptide binding]; other site 1305849007356 ATP/Mg binding site [chemical binding]; other site 1305849007357 stacking interactions; other site 1305849007358 hinge regions; other site 1305849007359 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 1305849007360 oligomerisation interface [polypeptide binding]; other site 1305849007361 mobile loop; other site 1305849007362 roof hairpin; other site 1305849007363 CAAX protease self-immunity; Region: Abi; pfam02517 1305849007364 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1305849007365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1305849007366 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1305849007367 NAD(P) binding site [chemical binding]; other site 1305849007368 active site 1305849007369 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1305849007370 YycH protein; Region: YycI; pfam09648 1305849007371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 1305849007372 YycH protein; Region: YycH; pfam07435 1305849007373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1305849007374 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 1305849007375 dimerization interface [polypeptide binding]; other site 1305849007376 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 1305849007377 putative active site [active] 1305849007378 heme pocket [chemical binding]; other site 1305849007379 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 1305849007380 dimer interface [polypeptide binding]; other site 1305849007381 phosphorylation site [posttranslational modification] 1305849007382 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 1305849007383 ATP binding site [chemical binding]; other site 1305849007384 Mg2+ binding site [ion binding]; other site 1305849007385 G-X-G motif; other site 1305849007386 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1305849007387 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 1305849007388 active site 1305849007389 phosphorylation site [posttranslational modification] 1305849007390 intermolecular recognition site; other site 1305849007391 dimerization interface [polypeptide binding]; other site 1305849007392 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 1305849007393 DNA binding site [nucleotide binding] 1305849007394 EDD domain protein, DegV family; Region: DegV; TIGR00762 1305849007395 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1305849007396 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849007397 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849007398 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849007399 Helix-turn-helix domain; Region: HTH_28; pfam13518 1305849007400 Helix-turn-helix domain; Region: HTH_28; pfam13518 1305849007401 Winged helix-turn helix; Region: HTH_29; pfam13551 1305849007402 Homeodomain-like domain; Region: HTH_32; pfam13565 1305849007403 putative transposase OrfB; Reviewed; Region: PHA02517 1305849007404 Integrase core domain; Region: rve; pfam00665 1305849007405 Integrase core domain; Region: rve_3; pfam13683 1305849007406 Transposase; Region: HTH_Tnp_1; pfam01527 1305849007407 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1305849007408 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1305849007409 active site 1305849007410 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 1305849007411 amidase catalytic site [active] 1305849007412 Zn binding residues [ion binding]; other site 1305849007413 substrate binding site [chemical binding]; other site 1305849007414 Haemolysin XhlA; Region: XhlA; pfam10779 1305849007415 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; pfam09693 1305849007416 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 1305849007417 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 1305849007418 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 1305849007419 linker region; other site 1305849007420 tape measure domain; Region: tape_meas_nterm; TIGR02675 1305849007421 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 1305849007422 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1305849007423 catalytic residue [active] 1305849007424 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 1305849007425 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 1305849007426 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1305849007427 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1305849007428 oligomerization interface [polypeptide binding]; other site 1305849007429 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1305849007430 Phage capsid family; Region: Phage_capsid; pfam05065 1305849007431 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1305849007432 oligomer interface [polypeptide binding]; other site 1305849007433 active site residues [active] 1305849007434 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1305849007435 Phage portal protein; Region: Phage_portal; pfam04860 1305849007436 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1305849007437 GIY-YIG domain of uncharacterized hypothetical protein found in phycodnavirus PBCV-1 DNA virus, T. thermophila Tlr element eoncoding protein Tlr8p, and similar proteins found in bacteria; Region: GIY-YIG_HE_Tlr8p_PBC-V_like; cd10443 1305849007438 GIY-YIG motif/motif A; other site 1305849007439 group I intron endonuclease; Region: grpIintron_endo; TIGR01453 1305849007440 putative active site [active] 1305849007441 putative metal binding site [ion binding]; other site 1305849007442 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 1305849007443 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1305849007444 Phage terminase, small subunit; Region: Terminase_4; pfam05119 1305849007445 YjzC-like protein; Region: YjzC; pfam14168 1305849007446 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 1305849007447 non-specific DNA binding site [nucleotide binding]; other site 1305849007448 salt bridge; other site 1305849007449 sequence-specific DNA binding site [nucleotide binding]; other site 1305849007450 Sm and related proteins; Region: Sm_like; cl00259 1305849007451 heptamer interface [polypeptide binding]; other site 1305849007452 Sm2 motif; other site 1305849007453 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 1305849007454 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 1305849007455 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 1305849007456 putative metal binding site [ion binding]; other site 1305849007457 Prohibitin family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_prohibitin; cd03401 1305849007458 prohibitin homologues; Region: PHB; smart00244 1305849007459 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1305849007460 VRR-NUC domain; Region: VRR_NUC; pfam08774 1305849007461 Uncharacterized conserved protein [Function unknown]; Region: COG4983 1305849007462 D5 N terminal like; Region: D5_N; pfam08706 1305849007463 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1305849007464 Protein of unknown function (DUF669); Region: DUF669; pfam05037 1305849007465 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1305849007466 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 1305849007467 ATP binding site [chemical binding]; other site 1305849007468 putative Mg++ binding site [ion binding]; other site 1305849007469 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 1305849007470 nucleotide binding region [chemical binding]; other site 1305849007471 ATP-binding site [chemical binding]; other site 1305849007472 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 1305849007473 AAA domain; Region: AAA_24; pfam13479 1305849007474 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 1305849007475 Helix-turn-helix domain; Region: HTH_17; cl17695 1305849007476 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 1305849007477 non-specific DNA binding site [nucleotide binding]; other site 1305849007478 salt bridge; other site 1305849007479 sequence-specific DNA binding site [nucleotide binding]; other site 1305849007480 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1305849007481 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 1305849007482 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 1305849007483 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1305849007484 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 1305849007485 Int/Topo IB signature motif; other site 1305849007486 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 1305849007487 RDD family; Region: RDD; pfam06271 1305849007488 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1305849007489 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1305849007490 tandem repeat interface [polypeptide binding]; other site 1305849007491 oligomer interface [polypeptide binding]; other site 1305849007492 active site residues [active] 1305849007493 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 1305849007494 HlyD family secretion protein; Region: HlyD_3; pfam13437 1305849007495 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 1305849007496 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 1305849007497 putative active site [active] 1305849007498 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849007499 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849007500 Walker A/P-loop; other site 1305849007501 ATP binding site [chemical binding]; other site 1305849007502 Q-loop/lid; other site 1305849007503 ABC transporter signature motif; other site 1305849007504 Walker B; other site 1305849007505 D-loop; other site 1305849007506 H-loop/switch region; other site 1305849007507 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 1305849007508 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1305849007509 active site 1305849007510 phosphorylation site [posttranslational modification] 1305849007511 intermolecular recognition site; other site 1305849007512 dimerization interface [polypeptide binding]; other site 1305849007513 LytTr DNA-binding domain; Region: LytTR; pfam04397 1305849007514 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1305849007515 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1305849007516 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1305849007517 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 1305849007518 ATP binding site [chemical binding]; other site 1305849007519 Mg2+ binding site [ion binding]; other site 1305849007520 G-X-G motif; other site 1305849007521 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1305849007522 Class II bacteriocin; Region: Bacteriocin_II; pfam01721 1305849007523 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1305849007524 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 1305849007525 dimer interface [polypeptide binding]; other site 1305849007526 conserved gate region; other site 1305849007527 putative PBP binding loops; other site 1305849007528 ABC-ATPase subunit interface; other site 1305849007529 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1305849007530 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1305849007531 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1305849007532 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1305849007533 Walker A/P-loop; other site 1305849007534 ATP binding site [chemical binding]; other site 1305849007535 Q-loop/lid; other site 1305849007536 ABC transporter signature motif; other site 1305849007537 Walker B; other site 1305849007538 D-loop; other site 1305849007539 H-loop/switch region; other site 1305849007540 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1305849007541 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1305849007542 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849007543 DNA-binding site [nucleotide binding]; DNA binding site 1305849007544 TrkA-C domain; Region: TrkA_C; pfam02080 1305849007545 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1305849007546 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1305849007547 Switch II region; other site 1305849007548 G4 box; other site 1305849007549 G5 box; other site 1305849007550 Nucleoside recognition; Region: Gate; pfam07670 1305849007551 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1305849007552 Nucleoside recognition; Region: Gate; pfam07670 1305849007553 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1305849007554 G1 box; other site 1305849007555 GTP/Mg2+ binding site [chemical binding]; other site 1305849007556 G2 box; other site 1305849007557 FeoA domain; Region: FeoA; pfam04023 1305849007558 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1305849007559 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 1305849007560 catalytic residues [active] 1305849007561 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1305849007562 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1305849007563 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1305849007564 active site 1305849007565 dimer interface [polypeptide binding]; other site 1305849007566 catalytic residues [active] 1305849007567 effector binding site; other site 1305849007568 R2 peptide binding site; other site 1305849007569 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1305849007570 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1305849007571 dimer interface [polypeptide binding]; other site 1305849007572 putative radical transfer pathway; other site 1305849007573 diiron center [ion binding]; other site 1305849007574 tyrosyl radical; other site 1305849007575 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1305849007576 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1305849007577 MgtC family; Region: MgtC; pfam02308 1305849007578 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1305849007579 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 1305849007580 active site 1305849007581 trimer interface [polypeptide binding]; other site 1305849007582 allosteric site; other site 1305849007583 active site lid [active] 1305849007584 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1305849007585 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1305849007586 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849007587 ABC transporter; Region: ABC_tran_2; pfam12848 1305849007588 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849007589 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1305849007590 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 1305849007591 putative substrate translocation pore; other site 1305849007592 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1305849007593 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 1305849007594 core dimer interface [polypeptide binding]; other site 1305849007595 peripheral dimer interface [polypeptide binding]; other site 1305849007596 L10 interface [polypeptide binding]; other site 1305849007597 L11 interface [polypeptide binding]; other site 1305849007598 putative EF-Tu interaction site [polypeptide binding]; other site 1305849007599 putative EF-G interaction site [polypeptide binding]; other site 1305849007600 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 1305849007601 23S rRNA interface [nucleotide binding]; other site 1305849007602 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1305849007603 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 1305849007604 mRNA/rRNA interface [nucleotide binding]; other site 1305849007605 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1305849007606 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 1305849007607 23S rRNA interface [nucleotide binding]; other site 1305849007608 L7/L12 interface [polypeptide binding]; other site 1305849007609 putative thiostrepton binding site; other site 1305849007610 L25 interface [polypeptide binding]; other site 1305849007611 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1305849007612 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1305849007613 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1305849007614 putative L-serine binding site [chemical binding]; other site 1305849007615 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1305849007616 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1305849007617 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1305849007618 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 1305849007619 active site 1305849007620 teramer interface [polypeptide binding]; other site 1305849007621 FMN binding site [chemical binding]; other site 1305849007622 catalytic residues [active] 1305849007623 Putative lysophospholipase; Region: Hydrolase_4; cl19140 1305849007624 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1305849007625 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1305849007626 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1305849007627 putative homodimer interface [polypeptide binding]; other site 1305849007628 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1305849007629 heterodimer interface [polypeptide binding]; other site 1305849007630 homodimer interface [polypeptide binding]; other site 1305849007631 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1305849007632 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1305849007633 FOG: CBS domain [General function prediction only]; Region: COG0517 1305849007634 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; cd02205 1305849007635 QueT transporter; Region: QueT; pfam06177 1305849007636 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1305849007637 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1305849007638 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1305849007639 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1305849007640 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1305849007641 Walker A/P-loop; other site 1305849007642 ATP binding site [chemical binding]; other site 1305849007643 Q-loop/lid; other site 1305849007644 ABC transporter signature motif; other site 1305849007645 Walker B; other site 1305849007646 D-loop; other site 1305849007647 H-loop/switch region; other site 1305849007648 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1305849007649 Histidine kinase; Region: HisKA_3; pfam07730 1305849007650 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1305849007651 ATP binding site [chemical binding]; other site 1305849007652 Mg2+ binding site [ion binding]; other site 1305849007653 G-X-G motif; other site 1305849007654 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 1305849007655 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1305849007656 active site 1305849007657 phosphorylation site [posttranslational modification] 1305849007658 intermolecular recognition site; other site 1305849007659 dimerization interface [polypeptide binding]; other site 1305849007660 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 1305849007661 DNA binding residues [nucleotide binding] 1305849007662 dimerization interface [polypeptide binding]; other site 1305849007663 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1305849007664 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 1305849007665 Helix-hairpin-helix containing domain; Region: HHH_4; pfam14490 1305849007666 AAA domain; Region: AAA_30; pfam13604 1305849007667 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 1305849007668 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 1305849007669 catalytic core [active] 1305849007670 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1305849007671 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1305849007672 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 1305849007673 S-adenosylmethionine binding site [chemical binding]; other site 1305849007674 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1305849007675 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1305849007676 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1305849007677 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1305849007678 Divalent cation transporter; Region: MgtE; pfam01769 1305849007679 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1305849007680 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1305849007681 active site 1305849007682 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1305849007683 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1305849007684 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1305849007685 synthetase active site [active] 1305849007686 NTP binding site [chemical binding]; other site 1305849007687 metal binding site [ion binding]; metal-binding site 1305849007688 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1305849007689 putative active site [active] 1305849007690 putative metal binding residues [ion binding]; other site 1305849007691 signature motif; other site 1305849007692 putative triphosphate binding site [ion binding]; other site 1305849007693 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1305849007694 catalytic residues [active] 1305849007695 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1305849007696 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1305849007697 active site 1305849007698 Zn binding site [ion binding]; other site 1305849007699 Competence protein CoiA-like family; Region: CoiA; cl11541 1305849007700 Negative regulator of genetic competence (MecA); Region: MecA; pfam05389 1305849007701 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 1305849007702 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849007703 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849007704 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849007705 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 1305849007706 putative catalytic residues [active] 1305849007707 thiol/disulfide switch; other site 1305849007708 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1305849007709 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 1305849007710 active site 1305849007711 motif I; other site 1305849007712 motif II; other site 1305849007713 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1305849007714 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 1305849007715 putative Mg++ binding site [ion binding]; other site 1305849007716 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 1305849007717 nucleotide binding region [chemical binding]; other site 1305849007718 ATP-binding site [chemical binding]; other site 1305849007719 SWIM zinc finger; Region: SWIM; pfam04434 1305849007720 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1305849007721 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 1305849007722 ATP binding site [chemical binding]; other site 1305849007723 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1305849007724 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1305849007725 Walker A/P-loop; other site 1305849007726 ATP binding site [chemical binding]; other site 1305849007727 Q-loop/lid; other site 1305849007728 ABC transporter signature motif; other site 1305849007729 Integral membrane protein DUF106; Region: DUF106; cl19818 1305849007730 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 1305849007731 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849007732 ABC transporter signature motif; other site 1305849007733 Walker B; other site 1305849007734 D-loop; other site 1305849007735 H-loop/switch region; other site 1305849007736 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1305849007737 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1305849007738 active site 1305849007739 metal binding site [ion binding]; metal-binding site 1305849007740 DNA binding site [nucleotide binding] 1305849007741 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1305849007742 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1305849007743 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1305849007744 putative acyl-acceptor binding pocket; other site 1305849007745 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1305849007746 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 1305849007747 S-adenosylmethionine binding site [chemical binding]; other site 1305849007748 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1305849007749 GIY-YIG motif/motif A; other site 1305849007750 putative active site [active] 1305849007751 putative metal binding site [ion binding]; other site 1305849007752 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1305849007753 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 1305849007754 catalytic triad [active] 1305849007755 catalytic triad [active] 1305849007756 oxyanion hole [active] 1305849007757 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1305849007758 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1305849007759 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1305849007760 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1305849007761 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1305849007762 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 1305849007763 dimer interface [polypeptide binding]; other site 1305849007764 anticodon binding site; other site 1305849007765 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 1305849007766 homodimer interface [polypeptide binding]; other site 1305849007767 motif 1; other site 1305849007768 active site 1305849007769 motif 2; other site 1305849007770 motif 3; other site 1305849007771 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1305849007772 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 1305849007773 dimer interface [polypeptide binding]; other site 1305849007774 motif 1; other site 1305849007775 active site 1305849007776 motif 2; other site 1305849007777 motif 3; other site 1305849007778 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 1305849007779 anticodon binding site; other site 1305849007780 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 1305849007781 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 1305849007782 active site 1305849007783 catalytic tetrad [active] 1305849007784 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1305849007785 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 1305849007786 putative active site [active] 1305849007787 dimerization interface [polypeptide binding]; other site 1305849007788 putative tRNAtyr binding site [nucleotide binding]; other site 1305849007789 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1305849007790 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1305849007791 Zn2+ binding site [ion binding]; other site 1305849007792 Mg2+ binding site [ion binding]; other site 1305849007793 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1305849007794 synthetase active site [active] 1305849007795 NTP binding site [chemical binding]; other site 1305849007796 metal binding site [ion binding]; metal-binding site 1305849007797 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 1305849007798 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1305849007799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1305849007800 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1305849007801 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 1305849007802 S-adenosylmethionine binding site [chemical binding]; other site 1305849007803 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1305849007804 active site 1305849007805 DNA binding site [nucleotide binding] 1305849007806 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 1305849007807 recombination factor protein RarA; Reviewed; Region: PRK13342 1305849007808 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 1305849007809 Walker A motif; other site 1305849007810 ATP binding site [chemical binding]; other site 1305849007811 Walker B motif; other site 1305849007812 arginine finger; other site 1305849007813 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1305849007814 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 1305849007815 Ligand Binding Site [chemical binding]; other site 1305849007816 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1305849007817 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849007818 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849007819 ABC transporter; Region: ABC_tran_2; pfam12848 1305849007820 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849007821 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1305849007822 nucleotide binding site [chemical binding]; other site 1305849007823 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1305849007824 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 1305849007825 S-adenosylmethionine binding site [chemical binding]; other site 1305849007826 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1305849007827 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1305849007828 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1305849007829 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1305849007830 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 1305849007831 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1305849007832 Walker A motif; other site 1305849007833 ATP binding site [chemical binding]; other site 1305849007834 Walker B motif; other site 1305849007835 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1305849007836 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 1305849007837 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1305849007838 active site 1305849007839 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 1305849007840 S-adenosylmethionine binding site [chemical binding]; other site 1305849007841 Thiamine kinase and related kinases [Coenzyme transport and metabolism]; Region: ycfN; COG0510 1305849007842 Phosphotransferase enzyme family; Region: APH; pfam01636 1305849007843 active site 1305849007844 substrate binding site [chemical binding]; other site 1305849007845 ATP binding site [chemical binding]; other site 1305849007846 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 1305849007847 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1305849007848 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1305849007849 Walker A/P-loop; other site 1305849007850 ATP binding site [chemical binding]; other site 1305849007851 Q-loop/lid; other site 1305849007852 ABC transporter signature motif; other site 1305849007853 Walker B; other site 1305849007854 D-loop; other site 1305849007855 H-loop/switch region; other site 1305849007856 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 1305849007857 HIT family signature motif; other site 1305849007858 catalytic residue [active] 1305849007859 YtxH-like protein; Region: YtxH; pfam12732 1305849007860 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 1305849007861 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1305849007862 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1305849007863 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 1305849007864 generic binding surface II; other site 1305849007865 generic binding surface I; other site 1305849007866 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1305849007867 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1305849007868 Zn2+ binding site [ion binding]; other site 1305849007869 Mg2+ binding site [ion binding]; other site 1305849007870 Uncharacterized conserved protein [Function unknown]; Region: COG4717 1305849007871 AAA domain; Region: AAA_23; pfam13476 1305849007872 Walker A/P-loop; other site 1305849007873 ATP binding site [chemical binding]; other site 1305849007874 Dot/Icm secretion system protein (dot_icm_IcmQ); Region: Dot_icm_IcmQ; cl09711 1305849007875 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1305849007876 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1305849007877 active site 1305849007878 metal binding site [ion binding]; metal-binding site 1305849007879 DNA binding site [nucleotide binding] 1305849007880 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1305849007881 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 1305849007882 active site 1305849007883 motif I; other site 1305849007884 motif II; other site 1305849007885 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1305849007886 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849007887 Pectate lyase superfamily protein; Region: Pectate_lyase_3; cl19188 1305849007888 putative symporter YagG; Provisional; Region: PRK09669; cl15392 1305849007889 MFS/sugar transport protein; Region: MFS_2; pfam13347 1305849007890 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1305849007891 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1305849007892 inhibitor binding site; inhibition site 1305849007893 active site 1305849007894 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 1305849007895 Pectinesterase; Region: Pectinesterase; cl01911 1305849007896 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1305849007897 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1305849007898 Pectate lyase superfamily protein; Region: Pectate_lyase_3; cl19188 1305849007899 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 1305849007900 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1305849007901 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1305849007902 Protein of unknown function, DUF624; Region: DUF624; cl02369 1305849007903 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1305849007904 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 1305849007905 dimer interface [polypeptide binding]; other site 1305849007906 conserved gate region; other site 1305849007907 ABC-ATPase subunit interface; other site 1305849007908 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1305849007909 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 1305849007910 dimer interface [polypeptide binding]; other site 1305849007911 conserved gate region; other site 1305849007912 putative PBP binding loops; other site 1305849007913 ABC-ATPase subunit interface; other site 1305849007914 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1305849007915 metal binding site [ion binding]; metal-binding site 1305849007916 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849007917 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1305849007918 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849007919 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849007920 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849007921 DNA binding site [nucleotide binding] 1305849007922 domain linker motif; other site 1305849007923 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1305849007924 dimerization interface [polypeptide binding]; other site 1305849007925 ligand binding site [chemical binding]; other site 1305849007926 altronate oxidoreductase; Provisional; Region: PRK03643 1305849007927 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1305849007928 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1305849007929 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1305849007930 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1305849007931 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1305849007932 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1305849007933 Glucuronate isomerase; Region: UxaC; pfam02614 1305849007934 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849007935 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849007936 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 1305849007937 active site 1305849007938 catalytic triad [active] 1305849007939 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1305849007940 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1305849007941 Metal-binding active site; metal-binding site 1305849007942 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849007943 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849007944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849007945 Walker A/P-loop; other site 1305849007946 ATP binding site [chemical binding]; other site 1305849007947 Q-loop/lid; other site 1305849007948 ABC transporter signature motif; other site 1305849007949 Walker B; other site 1305849007950 D-loop; other site 1305849007951 H-loop/switch region; other site 1305849007952 hypothetical protein; Provisional; Region: PRK13676 1305849007953 Transglycosylase; Region: Transgly; pfam00912 1305849007954 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1305849007955 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1305849007956 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1305849007957 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1305849007958 active site 1305849007959 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1305849007960 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1305849007961 nucleotide binding site [chemical binding]; other site 1305849007962 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1305849007963 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 1305849007964 active site 1305849007965 metal binding site [ion binding]; metal-binding site 1305849007966 homodimer interface [polypeptide binding]; other site 1305849007967 catalytic site [active] 1305849007968 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1305849007969 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 1305849007970 Uncharacterized conserved protein [Function unknown]; Region: COG3538 1305849007971 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849007972 DNA-binding site [nucleotide binding]; DNA binding site 1305849007973 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849007974 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1305849007975 ligand binding site [chemical binding]; other site 1305849007976 dimerization interface [polypeptide binding]; other site 1305849007977 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1305849007978 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1305849007979 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 1305849007980 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 1305849007981 active site 1305849007982 phosphorylation site [posttranslational modification] 1305849007983 intermolecular recognition site; other site 1305849007984 dimerization interface [polypeptide binding]; other site 1305849007985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849007986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849007987 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1305849007988 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 1305849007989 dimerization interface [polypeptide binding]; other site 1305849007990 Histidine kinase; Region: His_kinase; pfam06580 1305849007991 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 1305849007992 ATP binding site [chemical binding]; other site 1305849007993 Mg2+ binding site [ion binding]; other site 1305849007994 G-X-G motif; other site 1305849007995 Protein of unknown function, DUF624; Region: DUF624; cl02369 1305849007996 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1305849007997 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1305849007998 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 1305849007999 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1305849008000 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 1305849008001 dimer interface [polypeptide binding]; other site 1305849008002 conserved gate region; other site 1305849008003 putative PBP binding loops; other site 1305849008004 ABC-ATPase subunit interface; other site 1305849008005 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 1305849008006 dimer interface [polypeptide binding]; other site 1305849008007 conserved gate region; other site 1305849008008 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 1305849008009 ABC-ATPase subunit interface; other site 1305849008010 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1305849008011 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 1305849008012 RNA binding surface [nucleotide binding]; other site 1305849008013 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1305849008014 active site 1305849008015 uracil binding [chemical binding]; other site 1305849008016 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1305849008017 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1305849008018 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1305849008019 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1305849008020 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1305849008021 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1305849008022 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1305849008023 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 1305849008024 methionine cluster; other site 1305849008025 active site 1305849008026 phosphorylation site [posttranslational modification] 1305849008027 metal binding site [ion binding]; metal-binding site 1305849008028 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1305849008029 HTH domain; Region: HTH_11; pfam08279 1305849008030 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849008031 PRD domain; Region: PRD; pfam00874 1305849008032 PRD domain; Region: PRD; pfam00874 1305849008033 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 1305849008034 active site 1305849008035 P-loop; other site 1305849008036 phosphorylation site [posttranslational modification] 1305849008037 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 1305849008038 active site 1305849008039 phosphorylation site [posttranslational modification] 1305849008040 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 1305849008041 active site 1305849008042 P-loop; other site 1305849008043 phosphorylation site [posttranslational modification] 1305849008044 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1305849008045 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1305849008046 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849008047 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849008048 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1305849008049 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849008050 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849008051 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849008052 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; cl02788 1305849008053 catalytic residues [active] 1305849008054 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1305849008055 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1305849008056 DNA binding residues [nucleotide binding] 1305849008057 dimer interface [polypeptide binding]; other site 1305849008058 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849008059 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849008060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849008061 Walker A/P-loop; other site 1305849008062 ATP binding site [chemical binding]; other site 1305849008063 Q-loop/lid; other site 1305849008064 ABC transporter signature motif; other site 1305849008065 Walker B; other site 1305849008066 D-loop; other site 1305849008067 H-loop/switch region; other site 1305849008068 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849008069 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849008070 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849008071 Walker A/P-loop; other site 1305849008072 ATP binding site [chemical binding]; other site 1305849008073 Q-loop/lid; other site 1305849008074 ABC transporter signature motif; other site 1305849008075 Walker B; other site 1305849008076 D-loop; other site 1305849008077 H-loop/switch region; other site 1305849008078 BNR repeat-like domain; Region: BNR_2; pfam13088 1305849008079 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1305849008080 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1305849008081 HIGH motif; other site 1305849008082 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1305849008083 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1305849008084 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1305849008085 active site 1305849008086 KMSKS motif; other site 1305849008087 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1305849008088 tRNA binding surface [nucleotide binding]; other site 1305849008089 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1305849008090 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1305849008091 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1305849008092 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1305849008093 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1305849008094 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1305849008095 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1305849008096 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1305849008097 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1305849008098 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1305849008099 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1305849008100 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1305849008101 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 1305849008102 active site 1305849008103 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1305849008104 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 1305849008105 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1305849008106 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1305849008107 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849008108 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849008109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849008110 Walker A/P-loop; other site 1305849008111 ATP binding site [chemical binding]; other site 1305849008112 Q-loop/lid; other site 1305849008113 ABC transporter signature motif; other site 1305849008114 Walker B; other site 1305849008115 D-loop; other site 1305849008116 H-loop/switch region; other site 1305849008117 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849008118 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849008119 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849008120 Walker A/P-loop; other site 1305849008121 ATP binding site [chemical binding]; other site 1305849008122 Q-loop/lid; other site 1305849008123 ABC transporter signature motif; other site 1305849008124 Walker B; other site 1305849008125 D-loop; other site 1305849008126 H-loop/switch region; other site 1305849008127 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1305849008128 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1305849008129 Predicted esterase [General function prediction only]; Region: COG0627 1305849008130 S-formylglutathione hydrolase; Region: PLN02442 1305849008131 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 1305849008132 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1305849008133 putative substrate translocation pore; other site 1305849008134 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1305849008135 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1305849008136 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1305849008137 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1305849008138 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1305849008139 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 1305849008140 dimer interface [polypeptide binding]; other site 1305849008141 putative anticodon binding site; other site 1305849008142 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 1305849008143 motif 1; other site 1305849008144 active site 1305849008145 motif 2; other site 1305849008146 motif 3; other site 1305849008147 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1305849008148 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 1305849008149 FMN binding site [chemical binding]; other site 1305849008150 active site 1305849008151 catalytic residues [active] 1305849008152 substrate binding site [chemical binding]; other site 1305849008153 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1305849008154 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 1305849008155 dimerization interface [polypeptide binding]; other site 1305849008156 domain crossover interface; other site 1305849008157 redox-dependent activation switch; other site 1305849008158 FtsH Extracellular; Region: FtsH_ext; pfam06480 1305849008159 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1305849008160 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 1305849008161 Walker A motif; other site 1305849008162 ATP binding site [chemical binding]; other site 1305849008163 Walker B motif; other site 1305849008164 arginine finger; other site 1305849008165 Peptidase family M41; Region: Peptidase_M41; pfam01434 1305849008166 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1305849008167 active site 1305849008168 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1305849008169 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 1305849008170 Ligand Binding Site [chemical binding]; other site 1305849008171 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1305849008172 hypothetical protein; Provisional; Region: PRK08582 1305849008173 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 1305849008174 RNA binding site [nucleotide binding]; other site 1305849008175 Septum formation initiator; Region: DivIC; pfam04977 1305849008176 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 1305849008177 RNA binding surface [nucleotide binding]; other site 1305849008178 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1305849008179 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1305849008180 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1305849008181 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1305849008182 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 1305849008183 ATP binding site [chemical binding]; other site 1305849008184 putative Mg++ binding site [ion binding]; other site 1305849008185 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 1305849008186 nucleotide binding region [chemical binding]; other site 1305849008187 ATP-binding site [chemical binding]; other site 1305849008188 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1305849008189 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 1305849008190 putative active site [active] 1305849008191 catalytic residue [active] 1305849008192 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1305849008193 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1305849008194 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1305849008195 NAD binding site [chemical binding]; other site 1305849008196 dimer interface [polypeptide binding]; other site 1305849008197 substrate binding site [chemical binding]; other site 1305849008198 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1305849008199 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1305849008200 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1305849008201 hypothetical protein; Validated; Region: PRK00110 1305849008202 Predicted integral membrane protein [Function unknown]; Region: COG5652 1305849008203 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1305849008204 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 1305849008205 active site 1305849008206 Zn binding site [ion binding]; other site 1305849008207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1305849008208 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1305849008209 NlpC/P60 family; Region: NLPC_P60; pfam00877 1305849008210 rod shape-determining protein MreD; Region: MreD; pfam04093 1305849008211 rod shape-determining protein MreC; Provisional; Region: PRK13922 1305849008212 Thiamine pyrophosphokinase; Region: TPK; cd07995 1305849008213 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1305849008214 active site 1305849008215 dimerization interface [polypeptide binding]; other site 1305849008216 thiamine binding site [chemical binding]; other site 1305849008217 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 1305849008218 substrate binding site [chemical binding]; other site 1305849008219 hexamer interface [polypeptide binding]; other site 1305849008220 metal binding site [ion binding]; metal-binding site 1305849008221 GTPase RsgA; Reviewed; Region: PRK00098 1305849008222 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 1305849008223 RNA binding site [nucleotide binding]; other site 1305849008224 homodimer interface [polypeptide binding]; other site 1305849008225 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1305849008226 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1305849008227 GTP/Mg2+ binding site [chemical binding]; other site 1305849008228 G4 box; other site 1305849008229 G5 box; other site 1305849008230 G1 box; other site 1305849008231 Switch I region; other site 1305849008232 G2 box; other site 1305849008233 G3 box; other site 1305849008234 Switch II region; other site 1305849008235 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1305849008236 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1305849008237 active site 1305849008238 ATP binding site [chemical binding]; other site 1305849008239 substrate binding site [chemical binding]; other site 1305849008240 activation loop (A-loop); other site 1305849008241 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1305849008242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1305849008243 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 1305849008244 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 1305849008245 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 1305849008246 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 1305849008247 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 1305849008248 active site 1305849008249 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1305849008250 NusB family; Region: NusB; pfam01029 1305849008251 putative RNA binding site [nucleotide binding]; other site 1305849008252 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 1305849008253 S-adenosylmethionine binding site [chemical binding]; other site 1305849008254 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1305849008255 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1305849008256 putative active site [active] 1305849008257 substrate binding site [chemical binding]; other site 1305849008258 putative cosubstrate binding site; other site 1305849008259 catalytic site [active] 1305849008260 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1305849008261 substrate binding site [chemical binding]; other site 1305849008262 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 1305849008263 active site 1305849008264 catalytic residues [active] 1305849008265 metal binding site [ion binding]; metal-binding site 1305849008266 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1305849008267 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 1305849008268 ATP binding site [chemical binding]; other site 1305849008269 putative Mg++ binding site [ion binding]; other site 1305849008270 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 1305849008271 nucleotide binding region [chemical binding]; other site 1305849008272 ATP-binding site [chemical binding]; other site 1305849008273 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1305849008274 Guanylate kinase; Region: Guanylate_kin; pfam00625 1305849008275 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 1305849008276 catalytic site [active] 1305849008277 G-X2-G-X-G-K; other site 1305849008278 hypothetical protein; Provisional; Region: PRK11820 1305849008279 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1305849008280 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1305849008281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4443 1305849008282 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1305849008283 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1305849008284 active site 1305849008285 nucleophile elbow; other site 1305849008286 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 1305849008287 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 1305849008288 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1305849008289 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1305849008290 active site 1305849008291 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1305849008292 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1305849008293 Substrate binding site; other site 1305849008294 Mg++ binding site; other site 1305849008295 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 1305849008296 active site 1305849008297 substrate binding site [chemical binding]; other site 1305849008298 CoA binding site [chemical binding]; other site 1305849008299 pur operon repressor; Provisional; Region: PRK09213 1305849008300 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1305849008301 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1305849008302 active site 1305849008303 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 1305849008304 ABC-ATPase subunit interface; other site 1305849008305 dimer interface [polypeptide binding]; other site 1305849008306 putative PBP binding regions; other site 1305849008307 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1305849008308 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1305849008309 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1305849008310 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 1305849008311 metal binding site [ion binding]; metal-binding site 1305849008312 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1305849008313 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1305849008314 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1305849008315 Predicted integral membrane protein [Function unknown]; Region: COG0392 1305849008316 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1305849008317 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1305849008318 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1305849008319 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1305849008320 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 1305849008321 ribonuclease Y; Region: RNase_Y; TIGR03319 1305849008322 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 1305849008323 KH domain; Region: KH_1; pfam00013 1305849008324 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1305849008325 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1305849008326 Zn2+ binding site [ion binding]; other site 1305849008327 Mg2+ binding site [ion binding]; other site 1305849008328 recombinase A; Provisional; Region: recA; PRK09354 1305849008329 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 1305849008330 hexamer interface [polypeptide binding]; other site 1305849008331 Walker A motif; other site 1305849008332 ATP binding site [chemical binding]; other site 1305849008333 Walker B motif; other site 1305849008334 competence damage-inducible protein A; Provisional; Region: PRK00549 1305849008335 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 1305849008336 putative MPT binding site; other site 1305849008337 Y-family of DNA polymerases; Region: PolY; cl12025 1305849008338 Competence-damaged protein; Region: CinA; pfam02464 1305849008339 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1305849008340 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1305849008341 Helix-turn-helix domain; Region: HTH_25; pfam13413 1305849008342 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1305849008343 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1305849008344 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1305849008345 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1305849008346 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1305849008347 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1305849008348 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1305849008349 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1305849008350 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849008351 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849008352 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 1305849008353 RNA polymerase factor sigma-70; Validated; Region: PRK08295 1305849008354 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1305849008355 YacP-like NYN domain; Region: NYN_YacP; pfam05991 1305849008356 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1305849008357 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1305849008358 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1305849008359 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 1305849008360 active site 1305849008361 metal binding site [ion binding]; metal-binding site 1305849008362 dimerization interface [polypeptide binding]; other site 1305849008363 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1305849008364 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1305849008365 active site 1305849008366 HIGH motif; other site 1305849008367 KMSKS motif; other site 1305849008368 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1305849008369 tRNA binding surface [nucleotide binding]; other site 1305849008370 anticodon binding site; other site 1305849008371 serine O-acetyltransferase; Region: cysE; TIGR01172 1305849008372 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 1305849008373 trimer interface [polypeptide binding]; other site 1305849008374 active site 1305849008375 substrate binding site [chemical binding]; other site 1305849008376 CoA binding site [chemical binding]; other site 1305849008377 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1305849008378 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1305849008379 active site 1305849008380 HIGH motif; other site 1305849008381 KMSKS motif; other site 1305849008382 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1305849008383 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1305849008384 putative active site [active] 1305849008385 DNA repair protein RadA; Provisional; Region: PRK11823 1305849008386 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1305849008387 Walker A motif/ATP binding site; other site 1305849008388 ATP binding site [chemical binding]; other site 1305849008389 Walker B motif; other site 1305849008390 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1305849008391 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1305849008392 trimer interface [polypeptide binding]; other site 1305849008393 active site 1305849008394 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 1305849008395 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 1305849008396 nucleotide binding site [chemical binding]; other site 1305849008397 homotetrameric interface [polypeptide binding]; other site 1305849008398 putative phosphate binding site [ion binding]; other site 1305849008399 putative allosteric binding site; other site 1305849008400 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1305849008401 putative catalytic cysteine [active] 1305849008402 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 1305849008403 putative substrate translocation pore; other site 1305849008404 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1305849008405 Predicted transcriptional regulators [Transcription]; Region: COG1695 1305849008406 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1305849008407 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1305849008408 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849008409 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1305849008410 ABC transporter; Region: ABC_tran_2; pfam12848 1305849008411 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1305849008412 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 1305849008413 dimer interface [polypeptide binding]; other site 1305849008414 FMN binding site [chemical binding]; other site 1305849008415 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1305849008416 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 1305849008417 putative DNA binding site [nucleotide binding]; other site 1305849008418 putative Zn2+ binding site [ion binding]; other site 1305849008419 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1305849008420 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1305849008421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1305849008422 NAD(P) binding site [chemical binding]; other site 1305849008423 active site 1305849008424 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1305849008425 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1305849008426 putative trimer interface [polypeptide binding]; other site 1305849008427 putative CoA binding site [chemical binding]; other site 1305849008428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1305849008429 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 1305849008430 dimerization interface [polypeptide binding]; other site 1305849008431 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1305849008432 CAT RNA binding domain; Region: CAT_RBD; smart01061 1305849008433 PRD domain; Region: PRD; pfam00874 1305849008434 PRD domain; Region: PRD; pfam00874 1305849008435 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1305849008436 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1305849008437 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 1305849008438 active site turn [active] 1305849008439 phosphorylation site [posttranslational modification] 1305849008440 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1305849008441 HPr interaction site; other site 1305849008442 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1305849008443 active site 1305849008444 phosphorylation site [posttranslational modification] 1305849008445 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1305849008446 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1305849008447 NADP binding site [chemical binding]; other site 1305849008448 Predicted transcriptional regulator [Transcription]; Region: COG1959 1305849008449 Rrf2 family protein; Region: rrf2_super; TIGR00738 1305849008450 Integron-associated effector binding protein; Region: Cass2; pfam14526 1305849008451 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849008452 Helix-turn-helix domain; Region: HTH_18; pfam12833 1305849008453 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 1305849008454 Uncharacterized conserved protein [Function unknown]; Region: COG4715 1305849008455 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1305849008456 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1305849008457 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1305849008458 DNA-binding site [nucleotide binding]; DNA binding site 1305849008459 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1305849008460 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1305849008461 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1305849008462 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1305849008463 Predicted membrane protein [Function unknown]; Region: COG4392 1305849008464 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1305849008465 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1305849008466 putative NAD(P) binding site [chemical binding]; other site 1305849008467 dimer interface [polypeptide binding]; other site 1305849008468 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 1305849008469 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 1305849008470 FMN binding site [chemical binding]; other site 1305849008471 active site 1305849008472 catalytic residues [active] 1305849008473 substrate binding site [chemical binding]; other site 1305849008474 inner membrane transport permease; Provisional; Region: PRK15066 1305849008475 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1305849008476 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1305849008477 Walker A/P-loop; other site 1305849008478 ATP binding site [chemical binding]; other site 1305849008479 Q-loop/lid; other site 1305849008480 ABC transporter signature motif; other site 1305849008481 Walker B; other site 1305849008482 D-loop; other site 1305849008483 H-loop/switch region; other site 1305849008484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849008485 Walker A/P-loop; other site 1305849008486 ATP binding site [chemical binding]; other site 1305849008487 Q-loop/lid; other site 1305849008488 ABC transporter signature motif; other site 1305849008489 Walker B; other site 1305849008490 D-loop; other site 1305849008491 H-loop/switch region; other site 1305849008492 alpha-mannosidase; Provisional; Region: PRK09819 1305849008493 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1305849008494 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 1305849008495 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1305849008496 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 1305849008497 active site 1305849008498 P-loop; other site 1305849008499 phosphorylation site [posttranslational modification] 1305849008500 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 1305849008501 active site 1305849008502 phosphorylation site [posttranslational modification] 1305849008503 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1305849008504 HTH domain; Region: HTH_11; pfam08279 1305849008505 Mga helix-turn-helix domain; Region: Mga; pfam05043 1305849008506 PRD domain; Region: PRD; pfam00874 1305849008507 PRD domain; Region: PRD; pfam00874 1305849008508 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 1305849008509 active site 1305849008510 P-loop; other site 1305849008511 phosphorylation site [posttranslational modification] 1305849008512 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 1305849008513 active site 1305849008514 phosphorylation site [posttranslational modification] 1305849008515 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1305849008516 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 1305849008517 dimer interface [polypeptide binding]; other site 1305849008518 phosphorylation site [posttranslational modification] 1305849008519 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 1305849008520 ATP binding site [chemical binding]; other site 1305849008521 Mg2+ binding site [ion binding]; other site 1305849008522 G-X-G motif; other site 1305849008523 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1305849008524 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 1305849008525 active site 1305849008526 phosphorylation site [posttranslational modification] 1305849008527 intermolecular recognition site; other site 1305849008528 dimerization interface [polypeptide binding]; other site 1305849008529 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 1305849008530 DNA binding site [nucleotide binding] 1305849008531 Acyltransferase family; Region: Acyl_transf_3; cl19154 1305849008532 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1305849008533 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849008534 Walker A/P-loop; other site 1305849008535 ATP binding site [chemical binding]; other site 1305849008536 Q-loop/lid; other site 1305849008537 ABC transporter signature motif; other site 1305849008538 Walker B; other site 1305849008539 D-loop; other site 1305849008540 H-loop/switch region; other site 1305849008541 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849008542 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849008543 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849008544 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1305849008545 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 1305849008546 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 1305849008547 RelB antitoxin; Region: RelB; cl01171 1305849008548 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1305849008549 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1305849008550 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 1305849008551 putative active site [active] 1305849008552 putative NTP binding site [chemical binding]; other site 1305849008553 putative nucleic acid binding site [nucleotide binding]; other site 1305849008554 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1305849008555 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1305849008556 active site 1305849008557 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1305849008558 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 1305849008559 cofactor binding site; other site 1305849008560 DNA binding site [nucleotide binding] 1305849008561 substrate interaction site [chemical binding]; other site 1305849008562 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 1305849008563 non-specific DNA binding site [nucleotide binding]; other site 1305849008564 salt bridge; other site 1305849008565 sequence-specific DNA binding site [nucleotide binding]; other site 1305849008566 Replication initiation factor; Region: Rep_trans; pfam02486 1305849008567 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 1305849008568 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1305849008569 putative active site [active] 1305849008570 putative NTP binding site [chemical binding]; other site 1305849008571 putative nucleic acid binding site [nucleotide binding]; other site 1305849008572 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1305849008573 active site 1305849008574 Antirestriction protein (ArdA); Region: ArdA; pfam07275 1305849008575 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1305849008576 metal binding triad [ion binding]; metal-binding site 1305849008577 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 1305849008578 ThiF family; Region: ThiF; pfam00899 1305849008579 ATP binding site [chemical binding]; other site 1305849008580 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 1305849008581 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1305849008582 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1305849008583 TcpE family; Region: TcpE; pfam12648 1305849008584 AAA-like domain; Region: AAA_10; pfam12846 1305849008585 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1305849008586 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1305849008587 Plasminogen-binding protein pgbA C-terminal; Region: PGBA_C; pfam15437 1305849008588 Lysozyme-like; Region: Lysozyme_like; pfam13702 1305849008589 catalytic residue [active] 1305849008590 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1305849008591 NlpC/P60 family; Region: NLPC_P60; pfam00877 1305849008592 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 1305849008593 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 1305849008594 putative substrate translocation pore; other site 1305849008595 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 1305849008596 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1305849008597 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1305849008598 Peptidase family M23; Region: Peptidase_M23; pfam01551 1305849008599 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1305849008600 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1305849008601 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849008602 Rib/alpha-like repeat; Region: Rib; pfam08428 1305849008603 Rib/alpha/Esp surface antigen repeat; Region: rib_alpha; TIGR02331 1305849008604 Rib/alpha/Esp surface antigen repeat; Region: rib_alpha; TIGR02331 1305849008605 Rib/alpha-like repeat; Region: Rib; cl07159 1305849008606 Rib/alpha/Esp surface antigen repeat; Region: rib_alpha; TIGR02331 1305849008607 Rib/alpha-like repeat; Region: Rib; cl07159 1305849008608 Rib/alpha-like repeat; Region: Rib; pfam08428 1305849008609 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1305849008610 YSIRK-targeted surface antigen transcriptional regulator; Region: adjacent_YSIRK; TIGR04094 1305849008611 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1305849008612 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1305849008613 Helix-turn-helix domain; Region: HTH_16; pfam12645 1305849008614 HTH-like domain; Region: HTH_21; pfam13276 1305849008615 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1305849008616 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 1305849008617 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1305849008618 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1305849008619 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1305849008620 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 1305849008621 trimer interface [polypeptide binding]; other site 1305849008622 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 1305849008623 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1305849008624 Helix-turn-helix domain; Region: HTH_38; pfam13936 1305849008625 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1305849008626 Integrase core domain; Region: rve; pfam00665 1305849008627 Homeodomain-like domain; Region: HTH_23; pfam13384 1305849008628 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1305849008629 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 1305849008630 metal binding site [ion binding]; metal-binding site 1305849008631 YodA lipocalin-like domain; Region: YodA; pfam09223 1305849008632 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1305849008633 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 1305849008634 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1305849008635 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1305849008636 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1305849008637 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1305849008638 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849008639 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849008640 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849008641 Walker A/P-loop; other site 1305849008642 ATP binding site [chemical binding]; other site 1305849008643 Q-loop/lid; other site 1305849008644 ABC transporter signature motif; other site 1305849008645 Walker B; other site 1305849008646 D-loop; other site 1305849008647 H-loop/switch region; other site 1305849008648 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849008649 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1305849008650 Walker A/P-loop; other site 1305849008651 ATP binding site [chemical binding]; other site 1305849008652 Q-loop/lid; other site 1305849008653 ABC transporter signature motif; other site 1305849008654 Walker B; other site 1305849008655 D-loop; other site 1305849008656 H-loop/switch region; other site 1305849008657 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1305849008658 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1305849008659 conserved hypothetical integral membrane protein TIGR02185; Region: Trep_Strep 1305849008660 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849008661 ABC transporter signature motif; other site 1305849008662 Walker B; other site 1305849008663 D-loop; other site 1305849008664 H-loop/switch region; other site 1305849008665 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1305849008666 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1305849008667 Walker A/P-loop; other site 1305849008668 ATP binding site [chemical binding]; other site 1305849008669 Q-loop/lid; other site 1305849008670 ABC transporter signature motif; other site 1305849008671 Walker B; other site 1305849008672 D-loop; other site 1305849008673 H-loop/switch region; other site 1305849008674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849008675 Walker A/P-loop; other site 1305849008676 ATP binding site [chemical binding]; other site 1305849008677 Q-loop/lid; other site 1305849008678 Cobalt transport protein; Region: CbiQ; cl00463 1305849008679 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1305849008680 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1305849008681 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1305849008682 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 1305849008683 metal binding site [ion binding]; metal-binding site 1305849008684 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 1305849008685 ABC-ATPase subunit interface; other site 1305849008686 dimer interface [polypeptide binding]; other site 1305849008687 putative PBP binding regions; other site 1305849008688 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1305849008689 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1305849008690 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 1305849008691 active site 1305849008692 P-loop; other site 1305849008693 phosphorylation site [posttranslational modification] 1305849008694 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 1305849008695 Na binding site [ion binding]; other site 1305849008696 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1305849008697 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1305849008698 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1305849008699 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1305849008700 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1305849008701 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1305849008702 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1305849008703 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1305849008704 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1305849008705 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 1305849008706 putative active site [active] 1305849008707 metal binding site [ion binding]; metal-binding site 1305849008708 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1305849008709 tetrameric interface [polypeptide binding]; other site 1305849008710 NAD binding site [chemical binding]; other site 1305849008711 catalytic residues [active] 1305849008712 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1305849008713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1305849008714 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1305849008715 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1305849008716 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1305849008717 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1305849008718 PYR/PP interface [polypeptide binding]; other site 1305849008719 dimer interface [polypeptide binding]; other site 1305849008720 TPP binding site [chemical binding]; other site 1305849008721 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1305849008722 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1305849008723 TPP-binding site [chemical binding]; other site 1305849008724 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 1305849008725 substrate binding site [chemical binding]; other site 1305849008726 ATP binding site [chemical binding]; other site 1305849008727 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849008728 DNA binding site [nucleotide binding] 1305849008729 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1305849008730 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1305849008731 ligand binding site [chemical binding]; other site 1305849008732 Putative transposase; Region: Y2_Tnp; pfam04986 1305849008733 ornithine cyclodeaminase; Validated; Region: PRK08618 1305849008734 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; cl19124 1305849008735 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1305849008736 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1305849008737 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 1305849008738 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 1305849008739 C-terminal domain interface [polypeptide binding]; other site 1305849008740 sugar binding site [chemical binding]; other site 1305849008741 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1305849008742 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1305849008743 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1305849008744 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1305849008745 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 1305849008746 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 1305849008747 active site 1305849008748 DNA binding site [nucleotide binding] 1305849008749 Int/Topo IB signature motif; other site 1305849008750 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1305849008751 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 1305849008752 23S rRNA interface [nucleotide binding]; other site 1305849008753 L3 interface [polypeptide binding]; other site 1305849008754 Ferritin-like domain; Region: Ferritin; pfam00210 1305849008755 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1305849008756 dimerization interface [polypeptide binding]; other site 1305849008757 DPS ferroxidase diiron center [ion binding]; other site 1305849008758 ion pore; other site 1305849008759 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1305849008760 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1305849008761 N- and C-terminal domain interface [polypeptide binding]; other site 1305849008762 active site 1305849008763 catalytic site [active] 1305849008764 metal binding site [ion binding]; metal-binding site 1305849008765 carbohydrate binding site [chemical binding]; other site 1305849008766 ATP binding site [chemical binding]; other site 1305849008767 hypothetical protein; Region: PHA00727 1305849008768 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 1305849008769 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1305849008770 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1305849008771 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1305849008772 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 1305849008773 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1305849008774 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 1305849008775 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1305849008776 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1305849008777 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1305849008778 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1305849008779 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1305849008780 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1305849008781 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1305849008782 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1305849008783 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 1305849008784 putative NAD(P) binding site [chemical binding]; other site 1305849008785 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1305849008786 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 1305849008787 dimer interface [polypeptide binding]; other site 1305849008788 conserved gate region; other site 1305849008789 putative PBP binding loops; other site 1305849008790 ABC-ATPase subunit interface; other site 1305849008791 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1305849008792 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 1305849008793 dimer interface [polypeptide binding]; other site 1305849008794 conserved gate region; other site 1305849008795 putative PBP binding loops; other site 1305849008796 ABC-ATPase subunit interface; other site 1305849008797 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1305849008798 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1305849008799 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 1305849008800 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1305849008801 active site 1305849008802 homodimer interface [polypeptide binding]; other site 1305849008803 catalytic site [active] 1305849008804 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1305849008805 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849008806 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849008807 DNA binding site [nucleotide binding] 1305849008808 domain linker motif; other site 1305849008809 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 1305849008810 putative dimerization interface [polypeptide binding]; other site 1305849008811 putative ligand binding site [chemical binding]; other site 1305849008812 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1305849008813 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1305849008814 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1305849008815 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1305849008816 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1305849008817 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1305849008818 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1305849008819 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1305849008820 DNA binding site [nucleotide binding] 1305849008821 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1305849008822 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 1305849008823 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1305849008824 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1305849008825 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 1305849008826 RPB1 interaction site [polypeptide binding]; other site 1305849008827 RPB10 interaction site [polypeptide binding]; other site 1305849008828 RPB11 interaction site [polypeptide binding]; other site 1305849008829 RPB3 interaction site [polypeptide binding]; other site 1305849008830 RPB12 interaction site [polypeptide binding]; other site 1305849008831 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 1305849008832 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1305849008833 zinc binding site [ion binding]; other site 1305849008834 putative ligand binding site [chemical binding]; other site 1305849008835 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1305849008836 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 1305849008837 TM-ABC transporter signature motif; other site 1305849008838 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1305849008839 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849008840 Walker A/P-loop; other site 1305849008841 ATP binding site [chemical binding]; other site 1305849008842 Q-loop/lid; other site 1305849008843 ABC transporter signature motif; other site 1305849008844 Walker B; other site 1305849008845 D-loop; other site 1305849008846 H-loop/switch region; other site 1305849008847 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1305849008848 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1305849008849 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1305849008850 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1305849008851 DinB superfamily; Region: DinB_2; pfam12867 1305849008852 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 1305849008853 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1305849008854 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1305849008855 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1305849008856 substrate binding pocket [chemical binding]; other site 1305849008857 chain length determination region; other site 1305849008858 substrate-Mg2+ binding site; other site 1305849008859 catalytic residues [active] 1305849008860 aspartate-rich region 1; other site 1305849008861 active site lid residues [active] 1305849008862 aspartate-rich region 2; other site 1305849008863 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 1305849008864 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 1305849008865 trimer interface [polypeptide binding]; other site 1305849008866 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1305849008867 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849008868 FMN-binding domain; Region: FMN_bind; cl01081 1305849008869 FMN-binding domain; Region: FMN_bind; cl01081 1305849008870 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1305849008871 1,4-Dihydroxy-2-naphthoate octaprenyltransferase; Region: PT_UbiA_UBIAD1; cd13962 1305849008872 putative active site [active] 1305849008873 glutathione reductase; Validated; Region: PRK06116 1305849008874 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 1305849008875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1305849008876 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 1305849008877 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1305849008878 Peptidase family U32; Region: Peptidase_U32; pfam01136 1305849008879 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1305849008880 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1305849008881 Clp amino terminal domain; Region: Clp_N; pfam02861 1305849008882 Clp amino terminal domain; Region: Clp_N; pfam02861 1305849008883 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 1305849008884 Walker A motif; other site 1305849008885 ATP binding site [chemical binding]; other site 1305849008886 Walker B motif; other site 1305849008887 arginine finger; other site 1305849008888 UvrB/uvrC motif; Region: UVR; pfam02151 1305849008889 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 1305849008890 Walker A motif; other site 1305849008891 ATP binding site [chemical binding]; other site 1305849008892 Walker B motif; other site 1305849008893 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1305849008894 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 1305849008895 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1305849008896 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 1305849008897 active site 1305849008898 phosphorylation site [posttranslational modification] 1305849008899 intermolecular recognition site; other site 1305849008900 dimerization interface [polypeptide binding]; other site 1305849008901 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 1305849008902 DNA binding site [nucleotide binding] 1305849008903 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1305849008904 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 1305849008905 dimer interface [polypeptide binding]; other site 1305849008906 phosphorylation site [posttranslational modification] 1305849008907 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 1305849008908 ATP binding site [chemical binding]; other site 1305849008909 Mg2+ binding site [ion binding]; other site 1305849008910 G-X-G motif; other site 1305849008911 seryl-tRNA synthetase; Provisional; Region: PRK05431 1305849008912 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1305849008913 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 1305849008914 dimer interface [polypeptide binding]; other site 1305849008915 active site 1305849008916 motif 1; other site 1305849008917 motif 2; other site 1305849008918 motif 3; other site 1305849008919 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1305849008920 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 1305849008921 active site 1305849008922 Protein of unknown function (DUF1129); Region: DUF1129; pfam06570 1305849008923 GTP-binding protein YchF; Reviewed; Region: PRK09601 1305849008924 YchF GTPase; Region: YchF; cd01900 1305849008925 G1 box; other site 1305849008926 GTP/Mg2+ binding site [chemical binding]; other site 1305849008927 Switch I region; other site 1305849008928 G2 box; other site 1305849008929 Switch II region; other site 1305849008930 G3 box; other site 1305849008931 G4 box; other site 1305849008932 G5 box; other site 1305849008933 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 1305849008934 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1305849008935 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1305849008936 ParB-like nuclease domain; Region: ParBc; pfam02195 1305849008937 KorB domain; Region: KorB; pfam08535 1305849008938 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1305849008939 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1305849008940 P-loop; other site 1305849008941 Magnesium ion binding site [ion binding]; other site 1305849008942 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1305849008943 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1305849008944 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1305849008945 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1305849008946 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1305849008947 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1305849008948 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1305849008949 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1305849008950 G1 box; other site 1305849008951 GTP/Mg2+ binding site [chemical binding]; other site 1305849008952 Switch I region; other site 1305849008953 G2 box; other site 1305849008954 Switch II region; other site 1305849008955 G3 box; other site 1305849008956 G4 box; other site 1305849008957 G5 box; other site 1305849008958 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1305849008959 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 1305849008960 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1305849008961 Jag N-terminus; Region: Jag_N; pfam14804 1305849008962 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 1305849008963 G-X-X-G motif; other site 1305849008964 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 1305849008965 RxxxH motif; other site 1305849008966 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1305849008967 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1305849008968 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1305849008969 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1305849008970 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 surface protein substrate is...; Region: Sortase; cl09098 1305849008971 active site 1305849008972 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1305849008973 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 1305849008974 active site 1305849008975 catalytic site [active] 1305849008976 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849008977 Cna protein B-type domain; Region: Cna_B; pfam05738 1305849008978 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 1305849008979 active site 1305849008980 catalytic site [active] 1305849008981 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1305849008982 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1305849008983 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 1305849008984 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1305849008985 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 1305849008986 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1305849008987 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1305849008988 Synuclein; Region: Synuclein; pfam01387 1305849008989 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 1305849008990 AAA-like domain; Region: AAA_10; pfam12846 1305849008991 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 1305849008992 active site 1305849008993 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1305849008994 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1305849008995 Peptidase family M23; Region: Peptidase_M23; pfam01551 1305849008996 Enterobacterial virulence protein IpgD; Region: IpgD; cl19613 1305849008997 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1305849008998 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1305849008999 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1305849009000 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1305849009001 Toprim-like; Region: Toprim_2; pfam13155 1305849009002 DNA topoisomerase III; Provisional; Region: PRK07726 1305849009003 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1305849009004 active site 1305849009005 putative interdomain interaction site [polypeptide binding]; other site 1305849009006 putative metal-binding site [ion binding]; other site 1305849009007 putative nucleotide binding site [chemical binding]; other site 1305849009008 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 1305849009009 domain I; other site 1305849009010 DNA binding groove [nucleotide binding] 1305849009011 phosphate binding site [ion binding]; other site 1305849009012 domain II; other site 1305849009013 domain III; other site 1305849009014 nucleotide binding site [chemical binding]; other site 1305849009015 catalytic site [active] 1305849009016 domain IV; other site 1305849009017 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1305849009018 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1305849009019 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1305849009020 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1305849009021 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 1305849009022 dimer interface [polypeptide binding]; other site 1305849009023 ssDNA binding site [nucleotide binding]; other site 1305849009024 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1305849009025 YcfA-like protein; Region: YcfA; pfam07927 1305849009026 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1305849009027 galactoside permease; Reviewed; Region: lacY; PRK09528 1305849009028 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 1305849009029 putative substrate translocation pore; other site 1305849009030 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1305849009031 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1305849009032 substrate binding [chemical binding]; other site 1305849009033 active site 1305849009034 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1305849009035 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1305849009036 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1305849009037 nucleotide binding site [chemical binding]; other site 1305849009038 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1305849009039 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1305849009040 DNA binding site [nucleotide binding] 1305849009041 domain linker motif; other site 1305849009042 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 1305849009043 dimerization interface [polypeptide binding]; other site 1305849009044 ligand binding site [chemical binding]; other site 1305849009045 sodium binding site [ion binding]; other site 1305849009046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1305849009047 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1305849009048 Probable transposase; Region: OrfB_IS605; pfam01385 1305849009049 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1305849009050 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1305849009051 AAA domain; Region: AAA_21; pfam13304 1305849009052 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1305849009053 Walker B; other site 1305849009054 D-loop; other site 1305849009055 H-loop/switch region; other site 1305849009056 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1305849009057 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1305849009058 catalytic residues [active] 1305849009059 catalytic nucleophile [active] 1305849009060 Presynaptic Site I dimer interface [polypeptide binding]; other site 1305849009061 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1305849009062 Synaptic Flat tetramer interface [polypeptide binding]; other site 1305849009063 Synaptic Site I dimer interface [polypeptide binding]; other site 1305849009064 DNA binding site [nucleotide binding] 1305849009065 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 1305849009066 DNA-binding interface [nucleotide binding]; DNA binding site 1305849009067 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1305849009068 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1305849009069 catalytic residues [active] 1305849009070 catalytic nucleophile [active] 1305849009071 Presynaptic Site I dimer interface [polypeptide binding]; other site 1305849009072 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1305849009073 Synaptic Flat tetramer interface [polypeptide binding]; other site 1305849009074 Synaptic Site I dimer interface [polypeptide binding]; other site 1305849009075 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 1305849009076 DNA-binding interface [nucleotide binding]; DNA binding site 1305849009077 DNA polymerase IV; Reviewed; Region: PRK03103 1305849009078 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1305849009079 active site 1305849009080 DNA binding site [nucleotide binding] 1305849009081 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1305849009082 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1305849009083 MULE transposase domain; Region: MULE; pfam10551 1305849009084 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1305849009085 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1305849009086 P-loop; other site 1305849009087 Magnesium ion binding site [ion binding]; other site 1305849009088 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1305849009089 Magnesium ion binding site [ion binding]; other site 1305849009090 Replication initiation factor; Region: Rep_trans; pfam02486 1305849009091 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076